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")
#> $db_type
#> [1] "core"
#>
#> $object_type
#> [1] "Gene"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $display_name
#> [1] "BRCA1"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $version
#> [1] 15
#>
#> $Transcript
#> source is_canonical Parent biotype species
#> 1 ensembl_havana 0 ENSG00000012048 protein_coding human
#> 2 ensembl_havana 0 ENSG00000012048 protein_coding human
#> 3 havana 0 ENSG00000012048 protein_coding human
#> 4 havana 0 ENSG00000012048 protein_coding human
#> 5 havana 0 ENSG00000012048 protein_coding human
#> 6 ensembl_havana 0 ENSG00000012048 protein_coding human
#> 7 ensembl_havana 1 ENSG00000012048 protein_coding human
#> 8 havana 0 ENSG00000012048 nonsense_mediated_decay human
#> 9 havana 0 ENSG00000012048 protein_coding human
#> 10 havana 0 ENSG00000012048 protein_coding human
#> 11 havana 0 ENSG00000012048 protein_coding human
#> 12 havana 0 ENSG00000012048 protein_coding human
#> 13 havana 0 ENSG00000012048 retained_intron human
#> 14 havana 0 ENSG00000012048 protein_coding human
#> 15 havana 0 ENSG00000012048 protein_coding human
#> 16 havana 0 ENSG00000012048 retained_intron human
#> 17 havana 0 ENSG00000012048 non_stop_decay human
#> 18 havana 0 ENSG00000012048 protein_coding human
#> 19 havana 0 ENSG00000012048 protein_coding human
#> 20 havana 0 ENSG00000012048 nonsense_mediated_decay human
#> 21 havana 0 ENSG00000012048 protein_coding human
#> 22 havana 0 ENSG00000012048 protein_coding human
#> 23 havana 0 ENSG00000012048 protein_coding human
#> 24 havana 0 ENSG00000012048 protein_coding human
#> 25 havana 0 ENSG00000012048 nonsense_mediated_decay human
#> 26 havana 0 ENSG00000012048 protein_coding human
#> 27 ensembl 0 ENSG00000012048 protein_coding human
#> 28 ensembl 0 ENSG00000012048 protein_coding human
#> 29 ensembl 0 ENSG00000012048 protein_coding human
#> 30 ensembl 0 ENSG00000012048 protein_coding human
#> 31 ensembl 0 ENSG00000012048 protein_coding human
#> seq_region_name logic_name strand end object_type
#> 1 17 ensembl_havana_transcript -1 41277387 Transcript
#> 2 17 ensembl_havana_transcript -1 41277468 Transcript
#> 3 17 havana_homo_sapiens_37 -1 41277346 Transcript
#> 4 17 havana_homo_sapiens_37 -1 41277346 Transcript
#> 5 17 havana_homo_sapiens_37 -1 41277346 Transcript
#> 6 17 ensembl_havana_transcript -1 41277419 Transcript
#> 7 17 ensembl_havana_transcript -1 41277500 Transcript
#> 8 17 havana_homo_sapiens_37 -1 41277305 Transcript
#> 9 17 havana_homo_sapiens_37 -1 41277373 Transcript
#> 10 17 havana_homo_sapiens_37 -1 41256933 Transcript
#> 11 17 havana_homo_sapiens_37 -1 41277376 Transcript
#> 12 17 havana_homo_sapiens_37 -1 41277419 Transcript
#> 13 17 havana_homo_sapiens_37 -1 41223083 Transcript
#> 14 17 havana_homo_sapiens_37 -1 41256933 Transcript
#> 15 17 havana_homo_sapiens_37 -1 41243841 Transcript
#> 16 17 havana_homo_sapiens_37 -1 41277332 Transcript
#> 17 17 havana_homo_sapiens_37 -1 41247883 Transcript
#> 18 17 havana_homo_sapiens_37 -1 41277340 Transcript
#> 19 17 havana_homo_sapiens_37 -1 41277381 Transcript
#> 20 17 havana_homo_sapiens_37 -1 41277317 Transcript
#> 21 17 havana_homo_sapiens_37 -1 41277317 Transcript
#> 22 17 havana_homo_sapiens_37 -1 41277467 Transcript
#> 23 17 havana_homo_sapiens_37 -1 41256908 Transcript
#> 24 17 havana_homo_sapiens_37 -1 41277370 Transcript
#> 25 17 havana_homo_sapiens_37 -1 41277387 Transcript
#> 26 17 havana_homo_sapiens_37 -1 41277338 Transcript
#> 27 17 ensembl_homo_sapiens_37 -1 41277500 Transcript
#> 28 17 ensembl_homo_sapiens_37 -1 41277500 Transcript
#> 29 17 ensembl_homo_sapiens_37 -1 41277468 Transcript
#> 30 17 ensembl_homo_sapiens_37 -1 41276132 Transcript
#> 31 17 ensembl_homo_sapiens_37 -1 41277468 Transcript
#> Exon Translation.object_type Translation.db_type Translation.Parent
#> 1 c("core".... Translation core ENST00000357654
#> 2 c("core".... Translation core ENST00000468300
#> 3 c("core".... Translation core ENST00000586385
#> 4 c(412772.... Translation core ENST00000591534
#> 5 c(1, 1, .... Translation core ENST00000591849
#> 6 c(1, 1, .... Translation core ENST00000493795
#> 7 c("Exon".... Translation core ENST00000471181
#> 8 c("Exon".... Translation core ENST00000461221
#> 9 c("Exon".... Translation core ENST00000491747
#> 10 c("core".... Translation core ENST00000484087
#> 11 c("core".... Translation core ENST00000478531
#> 12 c(-1, -1.... Translation core ENST00000493919
#> 13 c("core".... <NA> <NA> <NA>
#> 14 c(-1, -1.... Translation core ENST00000487825
#> 15 c(-1, -1.... Translation core ENST00000461574
#> 16 c(412773.... <NA> <NA> <NA>
#> 17 c(412478.... Translation core ENST00000412061
#> 18 c("GRCh3.... Translation core ENST00000470026
#> 19 c("core".... Translation core ENST00000477152
#> 20 c("Exon".... Translation core ENST00000492859
#> 21 c("Exon".... Translation core ENST00000497488
#> 22 c(412774.... Translation core ENST00000494123
#> 23 c(412569.... Translation core ENST00000473961
#> 24 c("core".... Translation core ENST00000476777
#> 25 c(412772.... Translation core ENST00000461798
#> 26 c("ENSE0.... Translation core ENST00000489037
#> 27 c("core".... Translation core ENST00000354071
#> 28 c(412775.... Translation core ENST00000352993
#> 29 c("Exon".... Translation core ENST00000346315
#> 30 c("Exon".... Translation core ENST00000351666
#> 31 c("GRCh3.... Translation core ENST00000309486
#> Translation.length Translation.start Translation.version Translation.species
#> 1 1863 41197695 3 human
#> 2 699 41197801 1 human
#> 3 173 41197695 1 human
#> 4 354 41197695 1 human
#> 5 96 41197695 1 human
#> 6 1816 41197695 1 human
#> 7 1884 41197695 2 human
#> 8 63 41256972 1 human
#> 9 759 41197695 2 human
#> 10 498 41215361 1 human
#> 11 623 41215361 1 human
#> 12 572 41215377 1 human
#> 13 NA NA NA <NA>
#> 14 266 41228505 1 human
#> 15 242 41228554 1 human
#> 16 NA NA NA <NA>
#> 17 437 41245587 3 human
#> 18 649 41245601 1 human
#> 19 622 41245603 1 human
#> 20 59 41262552 1 human
#> 21 177 41246129 1 human
#> 22 473 41246129 1 human
#> 23 319 41246187 1 human
#> 24 222 41247863 1 human
#> 25 63 41256972 1 human
#> 26 98 41256206 1 human
#> 27 1598 41197695 6 human
#> 28 721 41197695 5 human
#> 29 1624 41197695 4 human
#> 30 680 41197695 3 human
#> 31 1567 41197695 4 human
#> Translation.id Translation.end db_type start length version
#> 1 ENSP00000350283 41276113 core 41196312 7094 3
#> 2 ENSP00000417148 41276113 core 41196822 3273 1
#> 3 ENSP00000465818 41277202 core 41197580 781 1
#> 4 ENSP00000467329 41226495 core 41197580 1282 1
#> 5 ENSP00000465347 41202109 core 41197580 563 1
#> 6 ENSP00000418775 41258543 core 41197646 5732 1
#> 7 ENSP00000418960 41276113 core 41197646 5936 2
#> 8 ENSP00000418548 41276113 core 41197695 5693 1
#> 9 ENSP00000420705 41276113 core 41197695 2379 2
#> 10 ENSP00000419481 41256933 core 41215361 1495 1
#> 11 ENSP00000420412 41276113 core 41215361 1972 1
#> 12 ENSP00000418819 41258543 core 41215377 1948 1
#> 13 <NA> NA core 41219291 561 1
#> 14 ENSP00000418212 41256933 core 41228505 800 1
#> 15 ENSP00000417241 41243841 core 41228554 726 1
#> 16 <NA> NA core 41243115 4497 1
#> 17 ENSP00000397145 41247883 core 41245587 1312 3
#> 18 ENSP00000419274 41276113 core 41245601 2108 1
#> 19 ENSP00000419988 41276113 core 41245603 1980 1
#> 20 ENSP00000420253 41276113 core 41246129 1584 1
#> 21 ENSP00000418986 41246659 core 41246129 779 1
#> 22 ENSP00000419103 41276113 core 41246129 1612 1
#> 23 ENSP00000420201 41256908 core 41246187 958 1
#> 24 ENSP00000417554 41276113 core 41247863 769 1
#> 25 ENSP00000417988 41276113 core 41251848 582 1
#> 26 ENSP00000420781 41276113 core 41256206 455 1
#> 27 ENSP00000326002 41276113 core 41196313 6411 3
#> 28 ENSP00000312236 41276113 core 41196313 3780 3
#> 29 ENSP00000246907 41276113 core 41196313 6451 3
#> 30 ENSP00000338007 41276113 core 41196313 3444 3
#> 31 ENSP00000310938 41246659 core 41196313 7114 4
#> gencode_primary id display_name assembly_name
#> 1 0 ENST00000357654 BRCA1-001 GRCh37
#> 2 0 ENST00000468300 BRCA1-007 GRCh37
#> 3 0 ENST00000586385 BRCA1-023 GRCh37
#> 4 0 ENST00000591534 BRCA1-024 GRCh37
#> 5 0 ENST00000591849 BRCA1-025 GRCh37
#> 6 0 ENST00000493795 BRCA1-006 GRCh37
#> 7 0 ENST00000471181 BRCA1-005 GRCh37
#> 8 0 ENST00000461221 BRCA1-010 GRCh37
#> 9 0 ENST00000491747 BRCA1-014 GRCh37
#> 10 0 ENST00000484087 BRCA1-015 GRCh37
#> 11 0 ENST00000478531 BRCA1-009 GRCh37
#> 12 0 ENST00000493919 BRCA1-008 GRCh37
#> 13 0 ENST00000472490 BRCA1-021 GRCh37
#> 14 0 ENST00000487825 BRCA1-019 GRCh37
#> 15 0 ENST00000461574 BRCA1-022 GRCh37
#> 16 0 ENST00000467274 BRCA1-012 GRCh37
#> 17 0 ENST00000412061 BRCA1-026 GRCh37
#> 18 0 ENST00000470026 BRCA1-011 GRCh37
#> 19 0 ENST00000477152 BRCA1-004 GRCh37
#> 20 0 ENST00000492859 BRCA1-002 GRCh37
#> 21 0 ENST00000497488 BRCA1-003 GRCh37
#> 22 0 ENST00000494123 BRCA1-013 GRCh37
#> 23 0 ENST00000473961 BRCA1-018 GRCh37
#> 24 0 ENST00000476777 BRCA1-017 GRCh37
#> 25 0 ENST00000461798 BRCA1-020 GRCh37
#> 26 0 ENST00000489037 BRCA1-016 GRCh37
#> 27 0 ENST00000354071 BRCA1-205 GRCh37
#> 28 0 ENST00000352993 BRCA1-204 GRCh37
#> 29 0 ENST00000346315 BRCA1-202 GRCh37
#> 30 0 ENST00000351666 BRCA1-203 GRCh37
#> 31 0 ENST00000309486 BRCA1-201 GRCh37
#>
#> $start
#> [1] 41196312
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $end
#> [1] 41277500
#>
#> $strand
#> [1] -1
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $seq_region_name
#> [1] "17"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $species
#> [1] "human"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
queryEnsemblByGene("ENSG00000139618")
#> $species
#> [1] "homo_sapiens"
#>
#> $strand
#> [1] 1
#>
#> $version
#> [1] 10
#>
#> $canonical_transcript
#> [1] "ENST00000544455.1"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $id
#> [1] "ENSG00000139618"
#>
#> $seq_region_name
#> [1] "13"
#>
#> $display_name
#> [1] "BRCA2"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $object_type
#> [1] "Gene"
#>
#> $description
#> [1] "breast cancer 2, early onset [Source:HGNC Symbol;Acc:1101]"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $db_type
#> [1] "core"
#>
#> $end
#> [1] 32973805
#>
#> $Transcript
#> is_canonical species strand version display_name assembly_name
#> 1 0 homo_sapiens 1 3 BRCA2-001 GRCh37
#> 2 0 homo_sapiens 1 2 BRCA2-003 GRCh37
#> 3 0 homo_sapiens 1 1 BRCA2-005 GRCh37
#> 4 0 homo_sapiens 1 1 BRCA2-002 GRCh37
#> 5 0 homo_sapiens 1 1 BRCA2-006 GRCh37
#> 6 1 homo_sapiens 1 1 BRCA2-201 GRCh37
#> source Parent seq_region_name Translation.object_type
#> 1 ensembl_havana ENSG00000139618 13 Translation
#> 2 havana ENSG00000139618 13 Translation
#> 3 havana ENSG00000139618 13 Translation
#> 4 havana ENSG00000139618 13 Translation
#> 5 havana ENSG00000139618 13 <NA>
#> 6 ensembl ENSG00000139618 13 Translation
#> Translation.Parent Translation.length Translation.id Translation.db_type
#> 1 ENST00000380152 3418 ENSP00000369497 core
#> 2 ENST00000530893 481 ENSP00000435699 core
#> 3 ENST00000528762 64 ENSP00000433168 core
#> 4 ENST00000470094 186 ENSP00000434898 core
#> 5 <NA> NA <NA> <NA>
#> 6 ENST00000544455 3418 ENSP00000439902 core
#> Translation.end Translation.start Translation.species Translation.version
#> 1 32972907 32890598 homo_sapiens 3
#> 2 32907428 32899266 homo_sapiens 2
#> 3 32950807 32945108 homo_sapiens 1
#> 4 32970229 32953977 homo_sapiens 1
#> 5 NA NA <NA> NA
#> 6 32972907 32890598 homo_sapiens 1
#> id logic_name gencode_primary Exon
#> 1 ENST00000380152 ensembl_havana_transcript 0 c(4, 1, ....
#> 2 ENST00000530893 havana_homo_sapiens_37 0 c(1, 1, ....
#> 3 ENST00000528762 havana_homo_sapiens_37 0 c(1, 1, ....
#> 4 ENST00000470094 havana_homo_sapiens_37 0 c(1, 1, ....
#> 5 ENST00000533776 havana_homo_sapiens_37 0 c(1, 1),....
#> 6 ENST00000544455 ensembl_homo_sapiens_37 0 c("13", ....
#> end db_type start object_type biotype length
#> 1 32973347 core 32889611 Transcript protein_coding 10930
#> 2 32907428 core 32889642 Transcript protein_coding 2011
#> 3 32953632 core 32945108 Transcript nonsense_mediated_decay 495
#> 4 32972409 core 32953977 Transcript nonsense_mediated_decay 842
#> 5 32972585 core 32970946 Transcript retained_intron 523
#> 6 32973805 core 32889617 Transcript protein_coding 10984
#>
#> $start
#> [1] 32889611
#>
event <- "SE_17_-_41251792_41249306_41249261_41246877_BRCA1"
queryEnsemblByEvent(event, species="human", assembly="hg19")
#> $species
#> [1] "human"
#>
#> $Transcript
#> gencode_primary logic_name biotype
#> 1 0 ensembl_havana_transcript protein_coding
#> 2 0 ensembl_havana_transcript protein_coding
#> 3 0 havana_homo_sapiens_37 protein_coding
#> 4 0 havana_homo_sapiens_37 protein_coding
#> 5 0 havana_homo_sapiens_37 protein_coding
#> 6 0 ensembl_havana_transcript protein_coding
#> 7 0 ensembl_havana_transcript protein_coding
#> 8 0 havana_homo_sapiens_37 nonsense_mediated_decay
#> 9 0 havana_homo_sapiens_37 protein_coding
#> 10 0 havana_homo_sapiens_37 protein_coding
#> 11 0 havana_homo_sapiens_37 protein_coding
#> 12 0 havana_homo_sapiens_37 protein_coding
#> 13 0 havana_homo_sapiens_37 retained_intron
#> 14 0 havana_homo_sapiens_37 protein_coding
#> 15 0 havana_homo_sapiens_37 protein_coding
#> 16 0 havana_homo_sapiens_37 retained_intron
#> 17 0 havana_homo_sapiens_37 non_stop_decay
#> 18 0 havana_homo_sapiens_37 protein_coding
#> 19 0 havana_homo_sapiens_37 protein_coding
#> 20 0 havana_homo_sapiens_37 nonsense_mediated_decay
#> 21 0 havana_homo_sapiens_37 protein_coding
#> 22 0 havana_homo_sapiens_37 protein_coding
#> 23 0 havana_homo_sapiens_37 protein_coding
#> 24 0 havana_homo_sapiens_37 protein_coding
#> 25 0 havana_homo_sapiens_37 nonsense_mediated_decay
#> 26 0 havana_homo_sapiens_37 protein_coding
#> 27 0 ensembl_homo_sapiens_37 protein_coding
#> 28 0 ensembl_homo_sapiens_37 protein_coding
#> 29 0 ensembl_homo_sapiens_37 protein_coding
#> 30 0 ensembl_homo_sapiens_37 protein_coding
#> 31 0 ensembl_homo_sapiens_37 protein_coding
#> id Translation.version Translation.end Translation.length
#> 1 ENST00000357654 3 41276113 1863
#> 2 ENST00000468300 1 41276113 699
#> 3 ENST00000586385 1 41277202 173
#> 4 ENST00000591534 1 41226495 354
#> 5 ENST00000591849 1 41202109 96
#> 6 ENST00000493795 1 41258543 1816
#> 7 ENST00000471181 2 41276113 1884
#> 8 ENST00000461221 1 41276113 63
#> 9 ENST00000491747 2 41276113 759
#> 10 ENST00000484087 1 41256933 498
#> 11 ENST00000478531 1 41276113 623
#> 12 ENST00000493919 1 41258543 572
#> 13 ENST00000472490 NA NA NA
#> 14 ENST00000487825 1 41256933 266
#> 15 ENST00000461574 1 41243841 242
#> 16 ENST00000467274 NA NA NA
#> 17 ENST00000412061 3 41247883 437
#> 18 ENST00000470026 1 41276113 649
#> 19 ENST00000477152 1 41276113 622
#> 20 ENST00000492859 1 41276113 59
#> 21 ENST00000497488 1 41246659 177
#> 22 ENST00000494123 1 41276113 473
#> 23 ENST00000473961 1 41256908 319
#> 24 ENST00000476777 1 41276113 222
#> 25 ENST00000461798 1 41276113 63
#> 26 ENST00000489037 1 41276113 98
#> 27 ENST00000354071 6 41276113 1598
#> 28 ENST00000352993 5 41276113 721
#> 29 ENST00000346315 4 41276113 1624
#> 30 ENST00000351666 3 41276113 680
#> 31 ENST00000309486 4 41246659 1567
#> Translation.start Translation.species Translation.db_type
#> 1 41197695 human core
#> 2 41197801 human core
#> 3 41197695 human core
#> 4 41197695 human core
#> 5 41197695 human core
#> 6 41197695 human core
#> 7 41197695 human core
#> 8 41256972 human core
#> 9 41197695 human core
#> 10 41215361 human core
#> 11 41215361 human core
#> 12 41215377 human core
#> 13 NA <NA> <NA>
#> 14 41228505 human core
#> 15 41228554 human core
#> 16 NA <NA> <NA>
#> 17 41245587 human core
#> 18 41245601 human core
#> 19 41245603 human core
#> 20 41262552 human core
#> 21 41246129 human core
#> 22 41246129 human core
#> 23 41246187 human core
#> 24 41247863 human core
#> 25 41256972 human core
#> 26 41256206 human core
#> 27 41197695 human core
#> 28 41197695 human core
#> 29 41197695 human core
#> 30 41197695 human core
#> 31 41197695 human core
#> Translation.object_type Translation.id Translation.Parent strand
#> 1 Translation ENSP00000350283 ENST00000357654 -1
#> 2 Translation ENSP00000417148 ENST00000468300 -1
#> 3 Translation ENSP00000465818 ENST00000586385 -1
#> 4 Translation ENSP00000467329 ENST00000591534 -1
#> 5 Translation ENSP00000465347 ENST00000591849 -1
#> 6 Translation ENSP00000418775 ENST00000493795 -1
#> 7 Translation ENSP00000418960 ENST00000471181 -1
#> 8 Translation ENSP00000418548 ENST00000461221 -1
#> 9 Translation ENSP00000420705 ENST00000491747 -1
#> 10 Translation ENSP00000419481 ENST00000484087 -1
#> 11 Translation ENSP00000420412 ENST00000478531 -1
#> 12 Translation ENSP00000418819 ENST00000493919 -1
#> 13 <NA> <NA> <NA> -1
#> 14 Translation ENSP00000418212 ENST00000487825 -1
#> 15 Translation ENSP00000417241 ENST00000461574 -1
#> 16 <NA> <NA> <NA> -1
#> 17 Translation ENSP00000397145 ENST00000412061 -1
#> 18 Translation ENSP00000419274 ENST00000470026 -1
#> 19 Translation ENSP00000419988 ENST00000477152 -1
#> 20 Translation ENSP00000420253 ENST00000492859 -1
#> 21 Translation ENSP00000418986 ENST00000497488 -1
#> 22 Translation ENSP00000419103 ENST00000494123 -1
#> 23 Translation ENSP00000420201 ENST00000473961 -1
#> 24 Translation ENSP00000417554 ENST00000476777 -1
#> 25 Translation ENSP00000417988 ENST00000461798 -1
#> 26 Translation ENSP00000420781 ENST00000489037 -1
#> 27 Translation ENSP00000326002 ENST00000354071 -1
#> 28 Translation ENSP00000312236 ENST00000352993 -1
#> 29 Translation ENSP00000246907 ENST00000346315 -1
#> 30 Translation ENSP00000338007 ENST00000351666 -1
#> 31 Translation ENSP00000310938 ENST00000309486 -1
#> Exon is_canonical seq_region_name species source db_type
#> 1 c("core".... 0 17 human ensembl_havana core
#> 2 c("17", .... 0 17 human ensembl_havana core
#> 3 c(1, 1, .... 0 17 human havana core
#> 4 c("17", .... 0 17 human havana core
#> 5 c("17", .... 0 17 human havana core
#> 6 c("ENSE0.... 0 17 human ensembl_havana core
#> 7 c(1, 1, .... 1 17 human ensembl_havana core
#> 8 c("ENSE0.... 0 17 human havana core
#> 9 c("core".... 0 17 human havana core
#> 10 c("ENSE0.... 0 17 human havana core
#> 11 c(1, 1, .... 0 17 human havana core
#> 12 c("ENSE0.... 0 17 human havana core
#> 13 c("17", .... 0 17 human havana core
#> 14 c("core".... 0 17 human havana core
#> 15 c("Exon".... 0 17 human havana core
#> 16 c("ENSE0.... 0 17 human havana core
#> 17 c(-1, -1.... 0 17 human havana core
#> 18 c(412771.... 0 17 human havana core
#> 19 c(412773.... 0 17 human havana core
#> 20 c(1, 1, .... 0 17 human havana core
#> 21 c(412773.... 0 17 human havana core
#> 22 c("ENSE0.... 0 17 human havana core
#> 23 c("ENSE0.... 0 17 human havana core
#> 24 c(412772.... 0 17 human havana core
#> 25 c("ENSE0.... 0 17 human havana core
#> 26 c("ENSE0.... 0 17 human havana core
#> 27 c("17", .... 0 17 human ensembl core
#> 28 c(412775.... 0 17 human ensembl core
#> 29 c("core".... 0 17 human ensembl core
#> 30 c("ENSE0.... 0 17 human ensembl core
#> 31 c(1, 1, .... 0 17 human ensembl core
#> object_type Parent end length display_name version start
#> 1 Transcript ENSG00000012048 41277387 7094 BRCA1-001 3 41196312
#> 2 Transcript ENSG00000012048 41277468 3273 BRCA1-007 1 41196822
#> 3 Transcript ENSG00000012048 41277346 781 BRCA1-023 1 41197580
#> 4 Transcript ENSG00000012048 41277346 1282 BRCA1-024 1 41197580
#> 5 Transcript ENSG00000012048 41277346 563 BRCA1-025 1 41197580
#> 6 Transcript ENSG00000012048 41277419 5732 BRCA1-006 1 41197646
#> 7 Transcript ENSG00000012048 41277500 5936 BRCA1-005 2 41197646
#> 8 Transcript ENSG00000012048 41277305 5693 BRCA1-010 1 41197695
#> 9 Transcript ENSG00000012048 41277373 2379 BRCA1-014 2 41197695
#> 10 Transcript ENSG00000012048 41256933 1495 BRCA1-015 1 41215361
#> 11 Transcript ENSG00000012048 41277376 1972 BRCA1-009 1 41215361
#> 12 Transcript ENSG00000012048 41277419 1948 BRCA1-008 1 41215377
#> 13 Transcript ENSG00000012048 41223083 561 BRCA1-021 1 41219291
#> 14 Transcript ENSG00000012048 41256933 800 BRCA1-019 1 41228505
#> 15 Transcript ENSG00000012048 41243841 726 BRCA1-022 1 41228554
#> 16 Transcript ENSG00000012048 41277332 4497 BRCA1-012 1 41243115
#> 17 Transcript ENSG00000012048 41247883 1312 BRCA1-026 3 41245587
#> 18 Transcript ENSG00000012048 41277340 2108 BRCA1-011 1 41245601
#> 19 Transcript ENSG00000012048 41277381 1980 BRCA1-004 1 41245603
#> 20 Transcript ENSG00000012048 41277317 1584 BRCA1-002 1 41246129
#> 21 Transcript ENSG00000012048 41277317 779 BRCA1-003 1 41246129
#> 22 Transcript ENSG00000012048 41277467 1612 BRCA1-013 1 41246129
#> 23 Transcript ENSG00000012048 41256908 958 BRCA1-018 1 41246187
#> 24 Transcript ENSG00000012048 41277370 769 BRCA1-017 1 41247863
#> 25 Transcript ENSG00000012048 41277387 582 BRCA1-020 1 41251848
#> 26 Transcript ENSG00000012048 41277338 455 BRCA1-016 1 41256206
#> 27 Transcript ENSG00000012048 41277500 6411 BRCA1-205 3 41196313
#> 28 Transcript ENSG00000012048 41277500 3780 BRCA1-204 3 41196313
#> 29 Transcript ENSG00000012048 41277468 6451 BRCA1-202 3 41196313
#> 30 Transcript ENSG00000012048 41276132 3444 BRCA1-203 3 41196313
#> 31 Transcript ENSG00000012048 41277468 7114 BRCA1-201 4 41196313
#> assembly_name
#> 1 GRCh37
#> 2 GRCh37
#> 3 GRCh37
#> 4 GRCh37
#> 5 GRCh37
#> 6 GRCh37
#> 7 GRCh37
#> 8 GRCh37
#> 9 GRCh37
#> 10 GRCh37
#> 11 GRCh37
#> 12 GRCh37
#> 13 GRCh37
#> 14 GRCh37
#> 15 GRCh37
#> 16 GRCh37
#> 17 GRCh37
#> 18 GRCh37
#> 19 GRCh37
#> 20 GRCh37
#> 21 GRCh37
#> 22 GRCh37
#> 23 GRCh37
#> 24 GRCh37
#> 25 GRCh37
#> 26 GRCh37
#> 27 GRCh37
#> 28 GRCh37
#> 29 GRCh37
#> 30 GRCh37
#> 31 GRCh37
#>
#> $seq_region_name
#> [1] "17"
#>
#> $strand
#> [1] -1
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $start
#> [1] 41196312
#>
#> $version
#> [1] 15
#>
#> $end
#> [1] 41277500
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $display_name
#> [1] "BRCA1"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $db_type
#> [1] "core"
#>
#> $object_type
#> [1] "Gene"
#>
#> $source
#> [1] "ensembl_havana"
#>