geneId geneName geneType transcriptId transcriptName transcriptType source havanaGeneId havanaTranscriptId ccdsId level transcriptClass proteinId transcriptRank tsl tags ENSG00000000457.14 SCYL3 protein_coding ENST00000367770.5 SCYL3-201 protein_coding HAVANA OTTHUMG00000035941.6 OTTHUMT00000087550.4 CCDS1287.1 2 coding ENSP00000356744.1 0 1 CCDS,appris_alternative_1,basic ENSG00000000457.14 SCYL3 protein_coding ENST00000367771.11 SCYL3-202 protein_coding HAVANA OTTHUMG00000035941.6 OTTHUMT00000087548.5 CCDS1286.1 2 coding ENSP00000356745.5 0 1 CCDS,Ensembl_canonical,MANE_Select,appris_principal_3,basic ENSG00000000457.14 SCYL3 protein_coding ENST00000367772.8 SCYL3-203 protein_coding ENSEMBL OTTHUMG00000035941.6 CCDS1287.1 3 coding ENSP00000356746.4 0 2 CCDS,appris_alternative_1,basic ENSG00000000457.14 SCYL3 protein_coding ENST00000423670.1 SCYL3-204 protein_coding HAVANA OTTHUMG00000035941.6 OTTHUMT00000087549.2 2 coding ENSP00000407993.1 0 5 cds_end_NF,mRNA_end_NF ENSG00000000457.14 SCYL3 protein_coding ENST00000470238.1 SCYL3-205 processed_transcript HAVANA OTTHUMG00000035941.6 OTTHUMT00000087552.1 2 nonCoding 0 5 ENSG00000142149.9 HUNK protein_coding ENST00000270112.7 HUNK-201 protein_coding HAVANA OTTHUMG00000085019.4 OTTHUMT00000192782.2 CCDS13610.1 2 coding ENSP00000270112.2 0 1 CCDS,Ensembl_canonical,MANE_Select,appris_principal_1,basic ENSG00000142149.9 HUNK protein_coding ENST00000430354.1 HUNK-202 protein_coding HAVANA OTTHUMG00000085019.4 OTTHUMT00000192783.2 2 coding ENSP00000411860.1 0 3 cds_end_NF,cds_start_NF,mRNA_end_NF,mRNA_start_NF ENSG00000142149.9 HUNK protein_coding ENST00000439107.1 HUNK-203 protein_coding HAVANA OTTHUMG00000085019.4 OTTHUMT00000193078.1 2 coding ENSP00000408219.1 0 5 cds_start_NF,mRNA_start_NF ENSG00000142149.9 HUNK protein_coding ENST00000465574.1 HUNK-204 processed_transcript HAVANA OTTHUMG00000085019.4 OTTHUMT00000193077.1 2 nonCoding 0 5 ENSG00000177693.5 OR4F4 protein_coding ENST00000650172.1 OR4F4-201 protein_coding HAVANA OTTHUMG00000172272.2 OTTHUMT00000417599.2 2 coding ENSP00000497674.1 0 Ensembl_canonical,appris_principal_1,basic,cds_start_NF,mRNA_start_NF ENSG00000182484.15 WASH6P protein_coding ENST00000340131.12 WASH6P-201 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058837.1 2 problem 0 1 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000359512.8 WASH6P-202 protein_coding HAVANA OTTHUMG00000022677.5 2 coding ENSP00000504557.1 0 NA Ensembl_canonical,PAR,appris_principal_1,basic,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000460206.6 WASH6P-203 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058838.1 2 problem 0 5 PAR,dotter_confirmed,non_canonical_TEC,not_best_in_genome_evidence,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000461007.6 WASH6P-204 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058840.1 2 problem 0 2 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000464205.6 WASH6P-205 processed_transcript HAVANA OTTHUMG00000022677.5 OTTHUMT00000058835.1 2 nonCoding 0 2 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000475594.6 WASH6P-206 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058832.1 2 problem 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000476066.6 WASH6P-207 processed_transcript HAVANA OTTHUMG00000022677.5 OTTHUMT00000058829.1 2 nonCoding 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000479401.6 WASH6P-208 processed_transcript HAVANA OTTHUMG00000022677.5 OTTHUMT00000058828.1 2 nonCoding 0 5 PAR,non_canonical_TEC,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000482170.6 WASH6P-209 processed_transcript HAVANA OTTHUMG00000022677.5 OTTHUMT00000058830.1 2 nonCoding 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000483079.6 WASH6P-210 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058833.1 2 problem 0 1 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000483286.6 WASH6P-211 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058834.1 2 problem 0 1 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000484415.6 WASH6P-212 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058825.1 2 problem 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000492963.6 WASH6P-213 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058839.1 2 problem 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000496011.6 WASH6P-214 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058831.1 2 problem 0 5 PAR,overlapping_locus ENSG00000182484.15 WASH6P protein_coding ENST00000496301.6 WASH6P-215 retained_intron HAVANA OTTHUMG00000022677.5 OTTHUMT00000058827.1 2 problem 0 2 PAR,overlapping_locus ENSG00000186092.7 OR4F5 protein_coding ENST00000641515.2 OR4F5-201 protein_coding HAVANA OTTHUMG00000001094.4 OTTHUMT00000003223.4 2 coding ENSP00000493376.2 0 Ensembl_canonical,MANE_Select,RNA_Seq_supported_partial,appris_principal_1,basic ENSG00000187634.13 SAMD11 protein_coding ENST00000341065.8 SAMD11-201 protein_coding HAVANA OTTHUMG00000040719.11 OTTHUMT00000097860.4 2 coding ENSP00000349216.4 0 5 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000342066.8 SAMD11-202 protein_coding HAVANA OTTHUMG00000040719.11 OTTHUMT00000276866.3 CCDS2.2 2 coding ENSP00000342313.3 0 5 CCDS,basic ENSG00000187634.13 SAMD11 protein_coding ENST00000437963.5 SAMD11-203 protein_coding HAVANA OTTHUMG00000040719.11 OTTHUMT00000097862.5 2 coding ENSP00000393181.1 0 5 alternative_5_UTR,cds_end_NF,mRNA_end_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000455979.1 SAMD11-204 protein_coding HAVANA OTTHUMG00000040719.11 OTTHUMT00000097863.4 2 coding ENSP00000412228.1 0 2 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000464948.1 SAMD11-205 retained_intron HAVANA OTTHUMG00000040719.11 OTTHUMT00000097868.2 2 problem 0 2 ENSG00000187634.13 SAMD11 protein_coding ENST00000466827.1 SAMD11-206 retained_intron HAVANA OTTHUMG00000040719.11 OTTHUMT00000097867.2 2 problem 0 3 ENSG00000187634.13 SAMD11 protein_coding ENST00000474461.1 SAMD11-207 retained_intron HAVANA OTTHUMG00000040719.11 OTTHUMT00000097866.1 2 problem 0 5 ENSG00000187634.13 SAMD11 protein_coding ENST00000478729.1 SAMD11-208 processed_transcript HAVANA OTTHUMG00000040719.11 OTTHUMT00000097865.2 2 nonCoding 0 5 ENSG00000187634.13 SAMD11 protein_coding ENST00000616016.5 SAMD11-209 protein_coding HAVANA OTTHUMG00000040719.11 OTTHUMT00000316521.3 2 coding ENSP00000478421.2 0 5 CAGE_supported_TSS,Ensembl_canonical,MANE_Select,RNA_Seq_supported_partial,appris_alternative_2,basic ENSG00000187634.13 SAMD11 protein_coding ENST00000616125.5 SAMD11-210 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000484643.1 0 5 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000617307.5 SAMD11-211 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000482090.2 0 5 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000618181.5 SAMD11-212 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000480870.1 0 5 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000618323.5 SAMD11-213 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000480678.2 0 5 CAGE_supported_TSS,appris_principal_4,basic ENSG00000187634.13 SAMD11 protein_coding ENST00000618779.5 SAMD11-214 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000484256.1 0 5 cds_start_NF,mRNA_start_NF ENSG00000187634.13 SAMD11 protein_coding ENST00000622503.5 SAMD11-215 protein_coding HAVANA OTTHUMG00000040719.11 2 coding ENSP00000482138.1 0 5 cds_start_NF,mRNA_start_NF ENSG00000222623.1 RNU6-1100P snRNA ENST00000410691.1 RNU6-1100P-201 snRNA ENSEMBL 3 nonCoding 0 NA Ensembl_canonical,basic ENSG00000223972.5 DDX11L1 transcribed_unprocessed_pseudogene ENST00000450305.2 DDX11L1-201 transcribed_unprocessed_pseudogene HAVANA OTTHUMG00000000961.2 OTTHUMT00000002844.2 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000223972.5 DDX11L1 transcribed_unprocessed_pseudogene ENST00000456328.2 DDX11L1-202 processed_transcript HAVANA OTTHUMG00000000961.2 OTTHUMT00000362751.1 2 pseudo 0 1 basic ENSG00000227232.5 WASH7P unprocessed_pseudogene ENST00000488147.1 WASH7P-201 unprocessed_pseudogene HAVANA OTTHUMG00000000958.1 OTTHUMT00000002839.1 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000424587.7 ENST00000424587 processed_transcript HAVANA OTTHUMG00000002552.3 OTTHUMT00000007242.3 2 pseudo 0 5 pseudo_consens ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000441866.2 ENST00000441866 processed_transcript HAVANA OTTHUMG00000002552.3 OTTHUMT00000346905.2 2 pseudo 0 5 basic,pseudo_consens ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000442116.1 ENST00000442116 processed_transcript HAVANA OTTHUMG00000002552.3 OTTHUMT00000007244.1 2 pseudo 0 5 basic,pseudo_consens ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000448958.2 ENST00000448958 processed_transcript HAVANA OTTHUMG00000002552.3 OTTHUMT00000488654.2 2 pseudo 0 5 RNA_Seq_supported_only,pseudo_consens ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000450734.1 ENST00000450734 transcribed_processed_pseudogene HAVANA OTTHUMG00000002552.3 OTTHUMT00000007241.1 1 pseudo 0 NA Ensembl_canonical,basic,pseudo_consens ENSG00000228463.10 ENSG00000228463 transcribed_processed_pseudogene ENST00000634344.2 ENST00000634344 processed_transcript HAVANA OTTHUMG00000002552.3 OTTHUMT00000007243.3 2 pseudo 0 5 RNA_Seq_supported_only,pseudo_consens ENSG00000231356.1 MTFR1P1 processed_pseudogene ENST00000415190.1 MTFR1P1-201 processed_pseudogene HAVANA OTTHUMG00000021733.1 OTTHUMT00000056999.1 1 pseudo 0 NA Ensembl_canonical,basic,pseudo_consens ENSG00000233750.3 CICP27 processed_pseudogene ENST00000442987.3 CICP27-201 processed_pseudogene HAVANA OTTHUMG00000001257.3 OTTHUMT00000003691.3 1 pseudo 0 NA Ensembl_canonical,basic,pseudo_consens ENSG00000237613.2 FAM138A lncRNA ENST00000417324.1 FAM138A-201 lncRNA HAVANA OTTHUMG00000000960.1 OTTHUMT00000002842.1 2 nonCoding 0 1 Ensembl_canonical,basic ENSG00000237613.2 FAM138A lncRNA ENST00000461467.1 FAM138A-202 lncRNA HAVANA OTTHUMG00000000960.1 OTTHUMT00000002843.1 2 nonCoding 0 3 ENSG00000238009.6 ENSG00000238009 lncRNA ENST00000453576.2 ENST00000453576 lncRNA HAVANA OTTHUMG00000001096.2 OTTHUMT00000003689.1 2 nonCoding 0 2 overlapping_locus ENSG00000238009.6 ENSG00000238009 lncRNA ENST00000466430.5 ENST00000466430 lncRNA HAVANA OTTHUMG00000001096.2 OTTHUMT00000003225.1 2 nonCoding 0 5 basic,not_best_in_genome_evidence,overlapping_locus ENSG00000238009.6 ENSG00000238009 lncRNA ENST00000471248.1 ENST00000471248 lncRNA HAVANA OTTHUMG00000001096.2 OTTHUMT00000003687.1 2 nonCoding 0 5 dotter_confirmed,not_best_in_genome_evidence,overlapping_locus ENSG00000238009.6 ENSG00000238009 lncRNA ENST00000477740.5 ENST00000477740 lncRNA HAVANA OTTHUMG00000001096.2 OTTHUMT00000003688.1 2 nonCoding 0 5 Ensembl_canonical,not_best_in_genome_evidence,overlapping_locus ENSG00000238009.6 ENSG00000238009 lncRNA ENST00000610542.1 ENST00000610542 lncRNA ENSEMBL OTTHUMG00000001096.2 3 nonCoding 0 5 basic,overlapping_locus ENSG00000239906.1 ENSG00000239906 lncRNA ENST00000493797.1 ENST00000493797 lncRNA HAVANA OTTHUMG00000002481.1 OTTHUMT00000007038.1 2 nonCoding 0 2 Ensembl_canonical,basic ENSG00000239945.1 ENSG00000239945 lncRNA ENST00000495576.1 ENST00000495576 lncRNA HAVANA OTTHUMG00000001097.2 OTTHUMT00000003226.2 2 nonCoding 0 5 Ensembl_canonical,basic,overlapping_locus ENSG00000240361.2 OR4G11P transcribed_unprocessed_pseudogene ENST00000492842.2 OR4G11P-201 transcribed_unprocessed_pseudogene HAVANA OTTHUMG00000001095.3 OTTHUMT00000003224.3 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000240361.2 OR4G11P transcribed_unprocessed_pseudogene ENST00000642116.1 OR4G11P-202 processed_transcript HAVANA OTTHUMG00000001095.3 OTTHUMT00000492680.1 2 pseudo 0 RNA_Seq_supported_partial,basic ENSG00000241599.1 ENSG00000241599 lncRNA ENST00000496488.1 ENST00000496488 lncRNA HAVANA OTTHUMG00000002525.1 OTTHUMT00000007169.1 2 nonCoding 0 5 Ensembl_canonical,basic,dotter_confirmed,not_best_in_genome_evidence ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000466557.6 ENST00000466557 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000007037.2 2 nonCoding 0 5 Ensembl_canonical,basic,ncRNA_host,not_best_in_genome_evidence ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000484859.1 ENST00000484859 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000007035.1 2 nonCoding 0 5 basic,ncRNA_host ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000490997.5 ENST00000490997 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000007036.1 2 nonCoding 0 5 ncRNA_host ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000491962.1 ENST00000491962 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000007168.1 2 nonCoding 0 5 ncRNA_host ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000655252.1 ENST00000655252 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000528579.1 2 nonCoding 0 TAGENE,ncRNA_host ENSG00000241860.7 ENSG00000241860 lncRNA ENST00000662089.1 ENST00000662089 lncRNA HAVANA OTTHUMG00000002480.4 OTTHUMT00000528578.1 2 nonCoding 0 TAGENE,basic,ncRNA_host ENSG00000243485.5 MIR1302-2HG lncRNA ENST00000469289.1 MIR1302-2HG-201 lncRNA HAVANA OTTHUMG00000000959.2 OTTHUMT00000002841.2 2 nonCoding 0 5 basic,ncRNA_host,not_best_in_genome_evidence ENSG00000243485.5 MIR1302-2HG lncRNA ENST00000473358.1 MIR1302-2HG-202 lncRNA HAVANA OTTHUMG00000000959.2 OTTHUMT00000002840.1 2 nonCoding 0 5 Ensembl_canonical,basic,dotter_confirmed,ncRNA_host,not_best_in_genome_evidence ENSG00000268020.3 OR4G4P unprocessed_pseudogene ENST00000606857.1 OR4G4P-201 unprocessed_pseudogene HAVANA OTTHUMG00000185779.1 OTTHUMT00000471235.1 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000268903.1 ENSG00000268903 processed_pseudogene ENST00000494149.2 ENST00000494149 processed_pseudogene HAVANA OTTHUMG00000182518.2 OTTHUMT00000461982.2 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000269981.1 ENSG00000269981 processed_pseudogene ENST00000595919.1 ENST00000595919 processed_pseudogene HAVANA OTTHUMG00000182738.2 OTTHUMT00000463398.2 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000273874.1 MIR6859-2 miRNA ENST00000612080.1 MIR6859-2-201 miRNA ENSEMBL 3 nonCoding 0 NA Ensembl_canonical,basic ENSG00000278267.1 MIR6859-1 miRNA ENST00000619216.1 MIR6859-1-201 miRNA ENSEMBL 3 nonCoding 0 NA Ensembl_canonical,basic ENSG00000279457.4 WASH9P unprocessed_pseudogene ENST00000623083.4 WASH9P-201 unprocessed_pseudogene HAVANA OTTHUMG00000191963.1 OTTHUMT00000491421.1 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000279928.2 DDX11L17 unprocessed_pseudogene ENST00000624431.2 DDX11L17-201 unprocessed_pseudogene HAVANA OTTHUMG00000191962.1 OTTHUMT00000491420.1 2 pseudo 0 NA Ensembl_canonical,basic ENSG00000284332.1 MIR1302-2 miRNA ENST00000607096.1 MIR1302-2-201 miRNA ENSEMBL 3 nonCoding 0 NA Ensembl_canonical,basic ENSG00000286448.1 ENSG00000286448 lncRNA ENST00000669836.1 ENST00000669836 lncRNA HAVANA OTTHUMG00000194680.1 OTTHUMT00000520595.1 2 nonCoding 0 Ensembl_canonical,TAGENE,basic