Query information from Ensembl
Usage
queryEnsemblByGene(gene, species = NULL, assembly = NULL)
queryEnsemblByEvent(event, species = NULL, assembly = NULL, data = NULL)See also
Other functions to retrieve external information:
ensemblToUniprot(),
plotProtein(),
plotTranscripts()
Examples
queryEnsemblByGene("BRCA1", "human", "hg19")
#> $display_name
#> [1] "BRCA1"
#>
#> $start
#> [1] 41196312
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $db_type
#> [1] "core"
#>
#> $version
#> [1] 15
#>
#> $end
#> [1] 41277500
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $seq_region_name
#> [1] "17"
#>
#> $species
#> [1] "human"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $strand
#> [1] -1
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $Transcript
#> species Parent seq_region_name end assembly_name db_type
#> 1 human ENSG00000012048 17 41277387 GRCh37 core
#> 2 human ENSG00000012048 17 41277468 GRCh37 core
#> 3 human ENSG00000012048 17 41277346 GRCh37 core
#> 4 human ENSG00000012048 17 41277346 GRCh37 core
#> 5 human ENSG00000012048 17 41277346 GRCh37 core
#> 6 human ENSG00000012048 17 41277419 GRCh37 core
#> 7 human ENSG00000012048 17 41277500 GRCh37 core
#> 8 human ENSG00000012048 17 41277305 GRCh37 core
#> 9 human ENSG00000012048 17 41277373 GRCh37 core
#> 10 human ENSG00000012048 17 41256933 GRCh37 core
#> 11 human ENSG00000012048 17 41277376 GRCh37 core
#> 12 human ENSG00000012048 17 41277419 GRCh37 core
#> 13 human ENSG00000012048 17 41223083 GRCh37 core
#> 14 human ENSG00000012048 17 41256933 GRCh37 core
#> 15 human ENSG00000012048 17 41243841 GRCh37 core
#> 16 human ENSG00000012048 17 41277332 GRCh37 core
#> 17 human ENSG00000012048 17 41247883 GRCh37 core
#> 18 human ENSG00000012048 17 41277340 GRCh37 core
#> 19 human ENSG00000012048 17 41277381 GRCh37 core
#> 20 human ENSG00000012048 17 41277317 GRCh37 core
#> 21 human ENSG00000012048 17 41277317 GRCh37 core
#> 22 human ENSG00000012048 17 41277467 GRCh37 core
#> 23 human ENSG00000012048 17 41256908 GRCh37 core
#> 24 human ENSG00000012048 17 41277370 GRCh37 core
#> 25 human ENSG00000012048 17 41277387 GRCh37 core
#> 26 human ENSG00000012048 17 41277338 GRCh37 core
#> 27 human ENSG00000012048 17 41277500 GRCh37 core
#> 28 human ENSG00000012048 17 41277500 GRCh37 core
#> 29 human ENSG00000012048 17 41277468 GRCh37 core
#> 30 human ENSG00000012048 17 41276132 GRCh37 core
#> 31 human ENSG00000012048 17 41277468 GRCh37 core
#> version length start gencode_primary display_name Translation.Parent
#> 1 3 7094 41196312 0 BRCA1-001 ENST00000357654
#> 2 1 3273 41196822 0 BRCA1-007 ENST00000468300
#> 3 1 781 41197580 0 BRCA1-023 ENST00000586385
#> 4 1 1282 41197580 0 BRCA1-024 ENST00000591534
#> 5 1 563 41197580 0 BRCA1-025 ENST00000591849
#> 6 1 5732 41197646 0 BRCA1-006 ENST00000493795
#> 7 2 5936 41197646 0 BRCA1-005 ENST00000471181
#> 8 1 5693 41197695 0 BRCA1-010 ENST00000461221
#> 9 2 2379 41197695 0 BRCA1-014 ENST00000491747
#> 10 1 1495 41215361 0 BRCA1-015 ENST00000484087
#> 11 1 1972 41215361 0 BRCA1-009 ENST00000478531
#> 12 1 1948 41215377 0 BRCA1-008 ENST00000493919
#> 13 1 561 41219291 0 BRCA1-021 <NA>
#> 14 1 800 41228505 0 BRCA1-019 ENST00000487825
#> 15 1 726 41228554 0 BRCA1-022 ENST00000461574
#> 16 1 4497 41243115 0 BRCA1-012 <NA>
#> 17 3 1312 41245587 0 BRCA1-026 ENST00000412061
#> 18 1 2108 41245601 0 BRCA1-011 ENST00000470026
#> 19 1 1980 41245603 0 BRCA1-004 ENST00000477152
#> 20 1 1584 41246129 0 BRCA1-002 ENST00000492859
#> 21 1 779 41246129 0 BRCA1-003 ENST00000497488
#> 22 1 1612 41246129 0 BRCA1-013 ENST00000494123
#> 23 1 958 41246187 0 BRCA1-018 ENST00000473961
#> 24 1 769 41247863 0 BRCA1-017 ENST00000476777
#> 25 1 582 41251848 0 BRCA1-020 ENST00000461798
#> 26 1 455 41256206 0 BRCA1-016 ENST00000489037
#> 27 3 6411 41196313 0 BRCA1-205 ENST00000354071
#> 28 3 3780 41196313 0 BRCA1-204 ENST00000352993
#> 29 3 6451 41196313 0 BRCA1-202 ENST00000346315
#> 30 3 3444 41196313 0 BRCA1-203 ENST00000351666
#> 31 4 7114 41196313 0 BRCA1-201 ENST00000309486
#> Translation.object_type Translation.species Translation.start
#> 1 Translation human 41197695
#> 2 Translation human 41197801
#> 3 Translation human 41197695
#> 4 Translation human 41197695
#> 5 Translation human 41197695
#> 6 Translation human 41197695
#> 7 Translation human 41197695
#> 8 Translation human 41256972
#> 9 Translation human 41197695
#> 10 Translation human 41215361
#> 11 Translation human 41215361
#> 12 Translation human 41215377
#> 13 <NA> <NA> NA
#> 14 Translation human 41228505
#> 15 Translation human 41228554
#> 16 <NA> <NA> NA
#> 17 Translation human 41245587
#> 18 Translation human 41245601
#> 19 Translation human 41245603
#> 20 Translation human 41262552
#> 21 Translation human 41246129
#> 22 Translation human 41246129
#> 23 Translation human 41246187
#> 24 Translation human 41247863
#> 25 Translation human 41256972
#> 26 Translation human 41256206
#> 27 Translation human 41197695
#> 28 Translation human 41197695
#> 29 Translation human 41197695
#> 30 Translation human 41197695
#> 31 Translation human 41197695
#> Translation.length Translation.id Translation.version Translation.db_type
#> 1 1863 ENSP00000350283 3 core
#> 2 699 ENSP00000417148 1 core
#> 3 173 ENSP00000465818 1 core
#> 4 354 ENSP00000467329 1 core
#> 5 96 ENSP00000465347 1 core
#> 6 1816 ENSP00000418775 1 core
#> 7 1884 ENSP00000418960 2 core
#> 8 63 ENSP00000418548 1 core
#> 9 759 ENSP00000420705 2 core
#> 10 498 ENSP00000419481 1 core
#> 11 623 ENSP00000420412 1 core
#> 12 572 ENSP00000418819 1 core
#> 13 NA <NA> NA <NA>
#> 14 266 ENSP00000418212 1 core
#> 15 242 ENSP00000417241 1 core
#> 16 NA <NA> NA <NA>
#> 17 437 ENSP00000397145 3 core
#> 18 649 ENSP00000419274 1 core
#> 19 622 ENSP00000419988 1 core
#> 20 59 ENSP00000420253 1 core
#> 21 177 ENSP00000418986 1 core
#> 22 473 ENSP00000419103 1 core
#> 23 319 ENSP00000420201 1 core
#> 24 222 ENSP00000417554 1 core
#> 25 63 ENSP00000417988 1 core
#> 26 98 ENSP00000420781 1 core
#> 27 1598 ENSP00000326002 6 core
#> 28 721 ENSP00000312236 5 core
#> 29 1624 ENSP00000246907 4 core
#> 30 680 ENSP00000338007 3 core
#> 31 1567 ENSP00000310938 4 core
#> Translation.end Exon object_type biotype
#> 1 41276113 c("human.... Transcript protein_coding
#> 2 41276113 c(412774.... Transcript protein_coding
#> 3 41277202 c(1, 1, .... Transcript protein_coding
#> 4 41226495 c("17", .... Transcript protein_coding
#> 5 41202109 c("17", .... Transcript protein_coding
#> 6 41258543 c("17", .... Transcript protein_coding
#> 7 41276113 c("human.... Transcript protein_coding
#> 8 41276113 c(412773.... Transcript nonsense_mediated_decay
#> 9 41276113 c(412772.... Transcript protein_coding
#> 10 41256933 c(412569.... Transcript protein_coding
#> 11 41276113 c("17", .... Transcript protein_coding
#> 12 41258543 c("17", .... Transcript protein_coding
#> 13 NA c(-1, -1.... Transcript retained_intron
#> 14 41256933 c(-1, -1.... Transcript protein_coding
#> 15 41243841 c(-1, -1.... Transcript protein_coding
#> 16 NA c("human.... Transcript retained_intron
#> 17 41247883 c("17", .... Transcript non_stop_decay
#> 18 41276113 c("Exon".... Transcript protein_coding
#> 19 41276113 c("human.... Transcript protein_coding
#> 20 41276113 c(-1, -1.... Transcript nonsense_mediated_decay
#> 21 41246659 c("17", .... Transcript protein_coding
#> 22 41276113 c(412772.... Transcript protein_coding
#> 23 41256908 c(412568.... Transcript protein_coding
#> 24 41276113 c(412773.... Transcript protein_coding
#> 25 41276113 c("17", .... Transcript nonsense_mediated_decay
#> 26 41276113 c(-1, -1.... Transcript protein_coding
#> 27 41276113 c(-1, -1.... Transcript protein_coding
#> 28 41276113 c("17", .... Transcript protein_coding
#> 29 41276113 c("17", .... Transcript protein_coding
#> 30 41276113 c("Exon".... Transcript protein_coding
#> 31 41246659 c("ENSE0.... Transcript protein_coding
#> logic_name is_canonical id strand source
#> 1 ensembl_havana_transcript 0 ENST00000357654 -1 ensembl_havana
#> 2 ensembl_havana_transcript 0 ENST00000468300 -1 ensembl_havana
#> 3 havana_homo_sapiens_37 0 ENST00000586385 -1 havana
#> 4 havana_homo_sapiens_37 0 ENST00000591534 -1 havana
#> 5 havana_homo_sapiens_37 0 ENST00000591849 -1 havana
#> 6 ensembl_havana_transcript 0 ENST00000493795 -1 ensembl_havana
#> 7 ensembl_havana_transcript 1 ENST00000471181 -1 ensembl_havana
#> 8 havana_homo_sapiens_37 0 ENST00000461221 -1 havana
#> 9 havana_homo_sapiens_37 0 ENST00000491747 -1 havana
#> 10 havana_homo_sapiens_37 0 ENST00000484087 -1 havana
#> 11 havana_homo_sapiens_37 0 ENST00000478531 -1 havana
#> 12 havana_homo_sapiens_37 0 ENST00000493919 -1 havana
#> 13 havana_homo_sapiens_37 0 ENST00000472490 -1 havana
#> 14 havana_homo_sapiens_37 0 ENST00000487825 -1 havana
#> 15 havana_homo_sapiens_37 0 ENST00000461574 -1 havana
#> 16 havana_homo_sapiens_37 0 ENST00000467274 -1 havana
#> 17 havana_homo_sapiens_37 0 ENST00000412061 -1 havana
#> 18 havana_homo_sapiens_37 0 ENST00000470026 -1 havana
#> 19 havana_homo_sapiens_37 0 ENST00000477152 -1 havana
#> 20 havana_homo_sapiens_37 0 ENST00000492859 -1 havana
#> 21 havana_homo_sapiens_37 0 ENST00000497488 -1 havana
#> 22 havana_homo_sapiens_37 0 ENST00000494123 -1 havana
#> 23 havana_homo_sapiens_37 0 ENST00000473961 -1 havana
#> 24 havana_homo_sapiens_37 0 ENST00000476777 -1 havana
#> 25 havana_homo_sapiens_37 0 ENST00000461798 -1 havana
#> 26 havana_homo_sapiens_37 0 ENST00000489037 -1 havana
#> 27 ensembl_homo_sapiens_37 0 ENST00000354071 -1 ensembl
#> 28 ensembl_homo_sapiens_37 0 ENST00000352993 -1 ensembl
#> 29 ensembl_homo_sapiens_37 0 ENST00000346315 -1 ensembl
#> 30 ensembl_homo_sapiens_37 0 ENST00000351666 -1 ensembl
#> 31 ensembl_homo_sapiens_37 0 ENST00000309486 -1 ensembl
#>
#> $object_type
#> [1] "Gene"
#>
queryEnsemblByGene("ENSG00000139618")
#> $canonical_transcript
#> [1] "ENST00000544455.1"
#>
#> $strand
#> [1] 1
#>
#> $display_name
#> [1] "BRCA2"
#>
#> $start
#> [1] 32889611
#>
#> $object_type
#> [1] "Gene"
#>
#> $seq_region_name
#> [1] "13"
#>
#> $version
#> [1] 10
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $species
#> [1] "homo_sapiens"
#>
#> $Transcript
#> species Exon seq_region_name assembly_name
#> 1 homo_sapiens c(4, 1, .... 13 GRCh37
#> 2 homo_sapiens c("homo_.... 13 GRCh37
#> 3 homo_sapiens c("13", .... 13 GRCh37
#> 4 homo_sapiens c(1, 1, .... 13 GRCh37
#> 5 homo_sapiens c(1, 1),.... 13 GRCh37
#> 6 homo_sapiens c("13", .... 13 GRCh37
#> biotype version end Parent db_type
#> 1 protein_coding 3 32973347 ENSG00000139618 core
#> 2 protein_coding 2 32907428 ENSG00000139618 core
#> 3 nonsense_mediated_decay 1 32953632 ENSG00000139618 core
#> 4 nonsense_mediated_decay 1 32972409 ENSG00000139618 core
#> 5 retained_intron 1 32972585 ENSG00000139618 core
#> 6 protein_coding 1 32973805 ENSG00000139618 core
#> id logic_name source is_canonical length
#> 1 ENST00000380152 ensembl_havana_transcript ensembl_havana 0 10930
#> 2 ENST00000530893 havana_homo_sapiens_37 havana 0 2011
#> 3 ENST00000528762 havana_homo_sapiens_37 havana 0 495
#> 4 ENST00000470094 havana_homo_sapiens_37 havana 0 842
#> 5 ENST00000533776 havana_homo_sapiens_37 havana 0 523
#> 6 ENST00000544455 ensembl_homo_sapiens_37 ensembl 1 10984
#> Translation.id Translation.start Translation.Parent Translation.db_type
#> 1 ENSP00000369497 32890598 ENST00000380152 core
#> 2 ENSP00000435699 32899266 ENST00000530893 core
#> 3 ENSP00000433168 32945108 ENST00000528762 core
#> 4 ENSP00000434898 32953977 ENST00000470094 core
#> 5 <NA> NA <NA> <NA>
#> 6 ENSP00000439902 32890598 ENST00000544455 core
#> Translation.end Translation.object_type Translation.version
#> 1 32972907 Translation 3
#> 2 32907428 Translation 2
#> 3 32950807 Translation 1
#> 4 32970229 Translation 1
#> 5 NA <NA> NA
#> 6 32972907 Translation 1
#> Translation.length Translation.species gencode_primary object_type start
#> 1 3418 homo_sapiens 0 Transcript 32889611
#> 2 481 homo_sapiens 0 Transcript 32889642
#> 3 64 homo_sapiens 0 Transcript 32945108
#> 4 186 homo_sapiens 0 Transcript 32953977
#> 5 NA <NA> 0 Transcript 32970946
#> 6 3418 homo_sapiens 0 Transcript 32889617
#> display_name strand
#> 1 BRCA2-001 1
#> 2 BRCA2-003 1
#> 3 BRCA2-005 1
#> 4 BRCA2-002 1
#> 5 BRCA2-006 1
#> 6 BRCA2-201 1
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $id
#> [1] "ENSG00000139618"
#>
#> $description
#> [1] "breast cancer 2, early onset [Source:HGNC Symbol;Acc:1101]"
#>
#> $end
#> [1] 32973805
#>
#> $db_type
#> [1] "core"
#>
event <- "SE_17_-_41251792_41249306_41249261_41246877_BRCA1"
queryEnsemblByEvent(event, species="human", assembly="hg19")
#> $display_name
#> [1] "BRCA1"
#>
#> $object_type
#> [1] "Gene"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $version
#> [1] 15
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $start
#> [1] 41196312
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $db_type
#> [1] "core"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $strand
#> [1] -1
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $Transcript
#> version length biotype start Translation.db_type
#> 1 3 7094 protein_coding 41196312 core
#> 2 1 3273 protein_coding 41196822 core
#> 3 1 781 protein_coding 41197580 core
#> 4 1 1282 protein_coding 41197580 core
#> 5 1 563 protein_coding 41197580 core
#> 6 1 5732 protein_coding 41197646 core
#> 7 2 5936 protein_coding 41197646 core
#> 8 1 5693 nonsense_mediated_decay 41197695 core
#> 9 2 2379 protein_coding 41197695 core
#> 10 1 1495 protein_coding 41215361 core
#> 11 1 1972 protein_coding 41215361 core
#> 12 1 1948 protein_coding 41215377 core
#> 13 1 561 retained_intron 41219291 <NA>
#> 14 1 800 protein_coding 41228505 core
#> 15 1 726 protein_coding 41228554 core
#> 16 1 4497 retained_intron 41243115 <NA>
#> 17 3 1312 non_stop_decay 41245587 core
#> 18 1 2108 protein_coding 41245601 core
#> 19 1 1980 protein_coding 41245603 core
#> 20 1 1584 nonsense_mediated_decay 41246129 core
#> 21 1 779 protein_coding 41246129 core
#> 22 1 1612 protein_coding 41246129 core
#> 23 1 958 protein_coding 41246187 core
#> 24 1 769 protein_coding 41247863 core
#> 25 1 582 nonsense_mediated_decay 41251848 core
#> 26 1 455 protein_coding 41256206 core
#> 27 3 6411 protein_coding 41196313 core
#> 28 3 3780 protein_coding 41196313 core
#> 29 3 6451 protein_coding 41196313 core
#> 30 3 3444 protein_coding 41196313 core
#> 31 4 7114 protein_coding 41196313 core
#> Translation.object_type Translation.id Translation.Parent
#> 1 Translation ENSP00000350283 ENST00000357654
#> 2 Translation ENSP00000417148 ENST00000468300
#> 3 Translation ENSP00000465818 ENST00000586385
#> 4 Translation ENSP00000467329 ENST00000591534
#> 5 Translation ENSP00000465347 ENST00000591849
#> 6 Translation ENSP00000418775 ENST00000493795
#> 7 Translation ENSP00000418960 ENST00000471181
#> 8 Translation ENSP00000418548 ENST00000461221
#> 9 Translation ENSP00000420705 ENST00000491747
#> 10 Translation ENSP00000419481 ENST00000484087
#> 11 Translation ENSP00000420412 ENST00000478531
#> 12 Translation ENSP00000418819 ENST00000493919
#> 13 <NA> <NA> <NA>
#> 14 Translation ENSP00000418212 ENST00000487825
#> 15 Translation ENSP00000417241 ENST00000461574
#> 16 <NA> <NA> <NA>
#> 17 Translation ENSP00000397145 ENST00000412061
#> 18 Translation ENSP00000419274 ENST00000470026
#> 19 Translation ENSP00000419988 ENST00000477152
#> 20 Translation ENSP00000420253 ENST00000492859
#> 21 Translation ENSP00000418986 ENST00000497488
#> 22 Translation ENSP00000419103 ENST00000494123
#> 23 Translation ENSP00000420201 ENST00000473961
#> 24 Translation ENSP00000417554 ENST00000476777
#> 25 Translation ENSP00000417988 ENST00000461798
#> 26 Translation ENSP00000420781 ENST00000489037
#> 27 Translation ENSP00000326002 ENST00000354071
#> 28 Translation ENSP00000312236 ENST00000352993
#> 29 Translation ENSP00000246907 ENST00000346315
#> 30 Translation ENSP00000338007 ENST00000351666
#> 31 Translation ENSP00000310938 ENST00000309486
#> Translation.species Translation.version Translation.end Translation.length
#> 1 human 3 41276113 1863
#> 2 human 1 41276113 699
#> 3 human 1 41277202 173
#> 4 human 1 41226495 354
#> 5 human 1 41202109 96
#> 6 human 1 41258543 1816
#> 7 human 2 41276113 1884
#> 8 human 1 41276113 63
#> 9 human 2 41276113 759
#> 10 human 1 41256933 498
#> 11 human 1 41276113 623
#> 12 human 1 41258543 572
#> 13 <NA> NA NA NA
#> 14 human 1 41256933 266
#> 15 human 1 41243841 242
#> 16 <NA> NA NA NA
#> 17 human 3 41247883 437
#> 18 human 1 41276113 649
#> 19 human 1 41276113 622
#> 20 human 1 41276113 59
#> 21 human 1 41246659 177
#> 22 human 1 41276113 473
#> 23 human 1 41256908 319
#> 24 human 1 41276113 222
#> 25 human 1 41276113 63
#> 26 human 1 41276113 98
#> 27 human 6 41276113 1598
#> 28 human 5 41276113 721
#> 29 human 4 41276113 1624
#> 30 human 3 41276113 680
#> 31 human 4 41246659 1567
#> Translation.start display_name object_type is_canonical Exon
#> 1 41197695 BRCA1-001 Transcript 0 c("GRCh3....
#> 2 41197801 BRCA1-007 Transcript 0 c(1, 1, ....
#> 3 41197695 BRCA1-023 Transcript 0 c("core"....
#> 4 41197695 BRCA1-024 Transcript 0 c(412772....
#> 5 41197695 BRCA1-025 Transcript 0 c(412772....
#> 6 41197695 BRCA1-006 Transcript 0 c(1, 1, ....
#> 7 41197695 BRCA1-005 Transcript 1 c("Exon"....
#> 8 41256972 BRCA1-010 Transcript 0 c(412773....
#> 9 41197695 BRCA1-014 Transcript 0 c("core"....
#> 10 41215361 BRCA1-015 Transcript 0 c(412569....
#> 11 41215361 BRCA1-009 Transcript 0 c(1, 1, ....
#> 12 41215377 BRCA1-008 Transcript 0 c(1, 1, ....
#> 13 NA BRCA1-021 Transcript 0 c(1, 1),....
#> 14 41228505 BRCA1-019 Transcript 0 c("GRCh3....
#> 15 41228554 BRCA1-022 Transcript 0 c(-1, -1....
#> 16 NA BRCA1-012 Transcript 0 c("GRCh3....
#> 17 41245587 BRCA1-026 Transcript 0 c(412478....
#> 18 41245601 BRCA1-011 Transcript 0 c(412771....
#> 19 41245603 BRCA1-004 Transcript 0 c(1, 1, ....
#> 20 41262552 BRCA1-002 Transcript 0 c(412773....
#> 21 41246129 BRCA1-003 Transcript 0 c("GRCh3....
#> 22 41246129 BRCA1-013 Transcript 0 c(-1, -1....
#> 23 41246187 BRCA1-018 Transcript 0 c("core"....
#> 24 41247863 BRCA1-017 Transcript 0 c(412772....
#> 25 41256972 BRCA1-020 Transcript 0 c(412772....
#> 26 41256206 BRCA1-016 Transcript 0 c("human....
#> 27 41197695 BRCA1-205 Transcript 0 c(-1, -1....
#> 28 41197695 BRCA1-204 Transcript 0 c(1, 1, ....
#> 29 41197695 BRCA1-202 Transcript 0 c("human....
#> 30 41197695 BRCA1-203 Transcript 0 c(-1, -1....
#> 31 41197695 BRCA1-201 Transcript 0 c(-1, -1....
#> Parent source end logic_name db_type
#> 1 ENSG00000012048 ensembl_havana 41277387 ensembl_havana_transcript core
#> 2 ENSG00000012048 ensembl_havana 41277468 ensembl_havana_transcript core
#> 3 ENSG00000012048 havana 41277346 havana_homo_sapiens_37 core
#> 4 ENSG00000012048 havana 41277346 havana_homo_sapiens_37 core
#> 5 ENSG00000012048 havana 41277346 havana_homo_sapiens_37 core
#> 6 ENSG00000012048 ensembl_havana 41277419 ensembl_havana_transcript core
#> 7 ENSG00000012048 ensembl_havana 41277500 ensembl_havana_transcript core
#> 8 ENSG00000012048 havana 41277305 havana_homo_sapiens_37 core
#> 9 ENSG00000012048 havana 41277373 havana_homo_sapiens_37 core
#> 10 ENSG00000012048 havana 41256933 havana_homo_sapiens_37 core
#> 11 ENSG00000012048 havana 41277376 havana_homo_sapiens_37 core
#> 12 ENSG00000012048 havana 41277419 havana_homo_sapiens_37 core
#> 13 ENSG00000012048 havana 41223083 havana_homo_sapiens_37 core
#> 14 ENSG00000012048 havana 41256933 havana_homo_sapiens_37 core
#> 15 ENSG00000012048 havana 41243841 havana_homo_sapiens_37 core
#> 16 ENSG00000012048 havana 41277332 havana_homo_sapiens_37 core
#> 17 ENSG00000012048 havana 41247883 havana_homo_sapiens_37 core
#> 18 ENSG00000012048 havana 41277340 havana_homo_sapiens_37 core
#> 19 ENSG00000012048 havana 41277381 havana_homo_sapiens_37 core
#> 20 ENSG00000012048 havana 41277317 havana_homo_sapiens_37 core
#> 21 ENSG00000012048 havana 41277317 havana_homo_sapiens_37 core
#> 22 ENSG00000012048 havana 41277467 havana_homo_sapiens_37 core
#> 23 ENSG00000012048 havana 41256908 havana_homo_sapiens_37 core
#> 24 ENSG00000012048 havana 41277370 havana_homo_sapiens_37 core
#> 25 ENSG00000012048 havana 41277387 havana_homo_sapiens_37 core
#> 26 ENSG00000012048 havana 41277338 havana_homo_sapiens_37 core
#> 27 ENSG00000012048 ensembl 41277500 ensembl_homo_sapiens_37 core
#> 28 ENSG00000012048 ensembl 41277500 ensembl_homo_sapiens_37 core
#> 29 ENSG00000012048 ensembl 41277468 ensembl_homo_sapiens_37 core
#> 30 ENSG00000012048 ensembl 41276132 ensembl_homo_sapiens_37 core
#> 31 ENSG00000012048 ensembl 41277468 ensembl_homo_sapiens_37 core
#> gencode_primary id strand assembly_name seq_region_name species
#> 1 0 ENST00000357654 -1 GRCh37 17 human
#> 2 0 ENST00000468300 -1 GRCh37 17 human
#> 3 0 ENST00000586385 -1 GRCh37 17 human
#> 4 0 ENST00000591534 -1 GRCh37 17 human
#> 5 0 ENST00000591849 -1 GRCh37 17 human
#> 6 0 ENST00000493795 -1 GRCh37 17 human
#> 7 0 ENST00000471181 -1 GRCh37 17 human
#> 8 0 ENST00000461221 -1 GRCh37 17 human
#> 9 0 ENST00000491747 -1 GRCh37 17 human
#> 10 0 ENST00000484087 -1 GRCh37 17 human
#> 11 0 ENST00000478531 -1 GRCh37 17 human
#> 12 0 ENST00000493919 -1 GRCh37 17 human
#> 13 0 ENST00000472490 -1 GRCh37 17 human
#> 14 0 ENST00000487825 -1 GRCh37 17 human
#> 15 0 ENST00000461574 -1 GRCh37 17 human
#> 16 0 ENST00000467274 -1 GRCh37 17 human
#> 17 0 ENST00000412061 -1 GRCh37 17 human
#> 18 0 ENST00000470026 -1 GRCh37 17 human
#> 19 0 ENST00000477152 -1 GRCh37 17 human
#> 20 0 ENST00000492859 -1 GRCh37 17 human
#> 21 0 ENST00000497488 -1 GRCh37 17 human
#> 22 0 ENST00000494123 -1 GRCh37 17 human
#> 23 0 ENST00000473961 -1 GRCh37 17 human
#> 24 0 ENST00000476777 -1 GRCh37 17 human
#> 25 0 ENST00000461798 -1 GRCh37 17 human
#> 26 0 ENST00000489037 -1 GRCh37 17 human
#> 27 0 ENST00000354071 -1 GRCh37 17 human
#> 28 0 ENST00000352993 -1 GRCh37 17 human
#> 29 0 ENST00000346315 -1 GRCh37 17 human
#> 30 0 ENST00000351666 -1 GRCh37 17 human
#> 31 0 ENST00000309486 -1 GRCh37 17 human
#>
#> $seq_region_name
#> [1] "17"
#>
#> $species
#> [1] "human"
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $end
#> [1] 41277500
#>