Query information from Ensembl
Usage
queryEnsemblByGene(gene, species = NULL, assembly = NULL)
queryEnsemblByEvent(event, species = NULL, assembly = NULL, data = NULL)Arguments
- gene
Character: gene
- species
Character: species (may be
NULLfor an Ensembl identifier)- assembly
Character: assembly version (may be NULL for an Ensembl identifier)
- event
Character: alternative splicing event
- data
Matrix or data frame: alternative splicing information
See also
Other functions to retrieve external information:
ensemblToUniprot(),
plotProtein(),
plotTranscripts()
Examples
queryEnsemblByGene("BRCA1", "human", "hg19")
#> $Transcript
#> end object_type species start strand display_name length
#> 1 41277387 Transcript human 41196312 -1 BRCA1-001 7094
#> 2 41277468 Transcript human 41196822 -1 BRCA1-007 3273
#> 3 41277346 Transcript human 41197580 -1 BRCA1-023 781
#> 4 41277346 Transcript human 41197580 -1 BRCA1-024 1282
#> 5 41277346 Transcript human 41197580 -1 BRCA1-025 563
#> 6 41277419 Transcript human 41197646 -1 BRCA1-006 5732
#> 7 41277500 Transcript human 41197646 -1 BRCA1-005 5936
#> 8 41277305 Transcript human 41197695 -1 BRCA1-010 5693
#> 9 41277373 Transcript human 41197695 -1 BRCA1-014 2379
#> 10 41256933 Transcript human 41215361 -1 BRCA1-015 1495
#> 11 41277376 Transcript human 41215361 -1 BRCA1-009 1972
#> 12 41277419 Transcript human 41215377 -1 BRCA1-008 1948
#> 13 41223083 Transcript human 41219291 -1 BRCA1-021 561
#> 14 41256933 Transcript human 41228505 -1 BRCA1-019 800
#> 15 41243841 Transcript human 41228554 -1 BRCA1-022 726
#> 16 41277332 Transcript human 41243115 -1 BRCA1-012 4497
#> 17 41247883 Transcript human 41245587 -1 BRCA1-026 1312
#> 18 41277340 Transcript human 41245601 -1 BRCA1-011 2108
#> 19 41277381 Transcript human 41245603 -1 BRCA1-004 1980
#> 20 41277317 Transcript human 41246129 -1 BRCA1-002 1584
#> 21 41277317 Transcript human 41246129 -1 BRCA1-003 779
#> 22 41277467 Transcript human 41246129 -1 BRCA1-013 1612
#> 23 41256908 Transcript human 41246187 -1 BRCA1-018 958
#> 24 41277370 Transcript human 41247863 -1 BRCA1-017 769
#> 25 41277387 Transcript human 41251848 -1 BRCA1-020 582
#> 26 41277338 Transcript human 41256206 -1 BRCA1-016 455
#> 27 41277500 Transcript human 41196313 -1 BRCA1-205 6411
#> 28 41277500 Transcript human 41196313 -1 BRCA1-204 3780
#> 29 41277468 Transcript human 41196313 -1 BRCA1-202 6451
#> 30 41276132 Transcript human 41196313 -1 BRCA1-203 3444
#> 31 41277468 Transcript human 41196313 -1 BRCA1-201 7114
#> id version source is_canonical Translation.end
#> 1 ENST00000357654 3 ensembl_havana 0 41276113
#> 2 ENST00000468300 1 ensembl_havana 0 41276113
#> 3 ENST00000586385 1 havana 0 41277202
#> 4 ENST00000591534 1 havana 0 41226495
#> 5 ENST00000591849 1 havana 0 41202109
#> 6 ENST00000493795 1 ensembl_havana 0 41258543
#> 7 ENST00000471181 2 ensembl_havana 1 41276113
#> 8 ENST00000461221 1 havana 0 41276113
#> 9 ENST00000491747 2 havana 0 41276113
#> 10 ENST00000484087 1 havana 0 41256933
#> 11 ENST00000478531 1 havana 0 41276113
#> 12 ENST00000493919 1 havana 0 41258543
#> 13 ENST00000472490 1 havana 0 NA
#> 14 ENST00000487825 1 havana 0 41256933
#> 15 ENST00000461574 1 havana 0 41243841
#> 16 ENST00000467274 1 havana 0 NA
#> 17 ENST00000412061 3 havana 0 41247883
#> 18 ENST00000470026 1 havana 0 41276113
#> 19 ENST00000477152 1 havana 0 41276113
#> 20 ENST00000492859 1 havana 0 41276113
#> 21 ENST00000497488 1 havana 0 41246659
#> 22 ENST00000494123 1 havana 0 41276113
#> 23 ENST00000473961 1 havana 0 41256908
#> 24 ENST00000476777 1 havana 0 41276113
#> 25 ENST00000461798 1 havana 0 41276113
#> 26 ENST00000489037 1 havana 0 41276113
#> 27 ENST00000354071 3 ensembl 0 41276113
#> 28 ENST00000352993 3 ensembl 0 41276113
#> 29 ENST00000346315 3 ensembl 0 41276113
#> 30 ENST00000351666 3 ensembl 0 41276113
#> 31 ENST00000309486 4 ensembl 0 41246659
#> 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.db_type Translation.length Translation.id Translation.version
#> 1 core 1863 ENSP00000350283 3
#> 2 core 699 ENSP00000417148 1
#> 3 core 173 ENSP00000465818 1
#> 4 core 354 ENSP00000467329 1
#> 5 core 96 ENSP00000465347 1
#> 6 core 1816 ENSP00000418775 1
#> 7 core 1884 ENSP00000418960 2
#> 8 core 63 ENSP00000418548 1
#> 9 core 759 ENSP00000420705 2
#> 10 core 498 ENSP00000419481 1
#> 11 core 623 ENSP00000420412 1
#> 12 core 572 ENSP00000418819 1
#> 13 <NA> NA <NA> NA
#> 14 core 266 ENSP00000418212 1
#> 15 core 242 ENSP00000417241 1
#> 16 <NA> NA <NA> NA
#> 17 core 437 ENSP00000397145 3
#> 18 core 649 ENSP00000419274 1
#> 19 core 622 ENSP00000419988 1
#> 20 core 59 ENSP00000420253 1
#> 21 core 177 ENSP00000418986 1
#> 22 core 473 ENSP00000419103 1
#> 23 core 319 ENSP00000420201 1
#> 24 core 222 ENSP00000417554 1
#> 25 core 63 ENSP00000417988 1
#> 26 core 98 ENSP00000420781 1
#> 27 core 1598 ENSP00000326002 6
#> 28 core 721 ENSP00000312236 5
#> 29 core 1624 ENSP00000246907 4
#> 30 core 680 ENSP00000338007 3
#> 31 core 1567 ENSP00000310938 4
#> Translation.Parent logic_name db_type seq_region_name
#> 1 ENST00000357654 ensembl_havana_transcript core 17
#> 2 ENST00000468300 ensembl_havana_transcript core 17
#> 3 ENST00000586385 havana_homo_sapiens_37 core 17
#> 4 ENST00000591534 havana_homo_sapiens_37 core 17
#> 5 ENST00000591849 havana_homo_sapiens_37 core 17
#> 6 ENST00000493795 ensembl_havana_transcript core 17
#> 7 ENST00000471181 ensembl_havana_transcript core 17
#> 8 ENST00000461221 havana_homo_sapiens_37 core 17
#> 9 ENST00000491747 havana_homo_sapiens_37 core 17
#> 10 ENST00000484087 havana_homo_sapiens_37 core 17
#> 11 ENST00000478531 havana_homo_sapiens_37 core 17
#> 12 ENST00000493919 havana_homo_sapiens_37 core 17
#> 13 <NA> havana_homo_sapiens_37 core 17
#> 14 ENST00000487825 havana_homo_sapiens_37 core 17
#> 15 ENST00000461574 havana_homo_sapiens_37 core 17
#> 16 <NA> havana_homo_sapiens_37 core 17
#> 17 ENST00000412061 havana_homo_sapiens_37 core 17
#> 18 ENST00000470026 havana_homo_sapiens_37 core 17
#> 19 ENST00000477152 havana_homo_sapiens_37 core 17
#> 20 ENST00000492859 havana_homo_sapiens_37 core 17
#> 21 ENST00000497488 havana_homo_sapiens_37 core 17
#> 22 ENST00000494123 havana_homo_sapiens_37 core 17
#> 23 ENST00000473961 havana_homo_sapiens_37 core 17
#> 24 ENST00000476777 havana_homo_sapiens_37 core 17
#> 25 ENST00000461798 havana_homo_sapiens_37 core 17
#> 26 ENST00000489037 havana_homo_sapiens_37 core 17
#> 27 ENST00000354071 ensembl_homo_sapiens_37 core 17
#> 28 ENST00000352993 ensembl_homo_sapiens_37 core 17
#> 29 ENST00000346315 ensembl_homo_sapiens_37 core 17
#> 30 ENST00000351666 ensembl_homo_sapiens_37 core 17
#> 31 ENST00000309486 ensembl_homo_sapiens_37 core 17
#> Exon assembly_name biotype Parent
#> 1 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 2 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#> 3 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#> 4 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 5 c(412773.... GRCh37 protein_coding ENSG00000012048
#> 6 c(-1, -1.... GRCh37 protein_coding ENSG00000012048
#> 7 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#> 8 c(-1, -1.... GRCh37 nonsense_mediated_decay ENSG00000012048
#> 9 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 10 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#> 11 c(412773.... GRCh37 protein_coding ENSG00000012048
#> 12 c("Exon".... GRCh37 protein_coding ENSG00000012048
#> 13 c(412230.... GRCh37 retained_intron ENSG00000012048
#> 14 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 15 c("17", .... GRCh37 protein_coding ENSG00000012048
#> 16 c("ENSE0.... GRCh37 retained_intron ENSG00000012048
#> 17 c(412478.... GRCh37 non_stop_decay ENSG00000012048
#> 18 c(412773.... GRCh37 protein_coding ENSG00000012048
#> 19 c("Exon".... GRCh37 protein_coding ENSG00000012048
#> 20 c(-1, -1.... GRCh37 nonsense_mediated_decay ENSG00000012048
#> 21 c("ENSE0.... GRCh37 protein_coding ENSG00000012048
#> 22 c("17", .... GRCh37 protein_coding ENSG00000012048
#> 23 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 24 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 25 c(1, 1, .... GRCh37 nonsense_mediated_decay ENSG00000012048
#> 26 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#> 27 c("Exon".... GRCh37 protein_coding ENSG00000012048
#> 28 c(412775.... GRCh37 protein_coding ENSG00000012048
#> 29 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 30 c(1, 1, .... GRCh37 protein_coding ENSG00000012048
#> 31 c("GRCh3.... GRCh37 protein_coding ENSG00000012048
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $db_type
#> [1] "core"
#>
#> $seq_region_name
#> [1] "17"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $display_name
#> [1] "BRCA1"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $version
#> [1] 15
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $end
#> [1] 41277500
#>
#> $object_type
#> [1] "Gene"
#>
#> $start
#> [1] 41196312
#>
#> $species
#> [1] "human"
#>
#> $strand
#> [1] -1
#>
queryEnsemblByGene("ENSG00000139618")
#> $seq_region_name
#> [1] "13"
#>
#> $end
#> [1] 32973805
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $display_name
#> [1] "BRCA2"
#>
#> $start
#> [1] 32889611
#>
#> $version
#> [1] 10
#>
#> $db_type
#> [1] "core"
#>
#> $canonical_transcript
#> [1] "ENST00000544455.1"
#>
#> $strand
#> [1] 1
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $object_type
#> [1] "Gene"
#>
#> $species
#> [1] "homo_sapiens"
#>
#> $description
#> [1] "breast cancer 2, early onset [Source:HGNC Symbol;Acc:1101]"
#>
#> $Transcript
#> source assembly_name end seq_region_name version is_canonical
#> 1 ensembl_havana GRCh37 32973347 13 3 0
#> 2 havana GRCh37 32907428 13 2 0
#> 3 havana GRCh37 32953632 13 1 0
#> 4 havana GRCh37 32972409 13 1 0
#> 5 havana GRCh37 32972585 13 1 0
#> 6 ensembl GRCh37 32973805 13 1 1
#> db_type Exon Translation.end Translation.object_type
#> 1 core c(4, 1, .... 32972907 Translation
#> 2 core c("ENSE0.... 32907428 Translation
#> 3 core c(1, 1, .... 32950807 Translation
#> 4 core c(1, 1, .... 32970229 Translation
#> 5 core c("homo_.... NA <NA>
#> 6 core c("core".... 32972907 Translation
#> Translation.Parent Translation.length Translation.start Translation.species
#> 1 ENST00000380152 3418 32890598 homo_sapiens
#> 2 ENST00000530893 481 32899266 homo_sapiens
#> 3 ENST00000528762 64 32945108 homo_sapiens
#> 4 ENST00000470094 186 32953977 homo_sapiens
#> 5 <NA> NA NA <NA>
#> 6 ENST00000544455 3418 32890598 homo_sapiens
#> Translation.db_type Translation.version Translation.id start display_name
#> 1 core 3 ENSP00000369497 32889611 BRCA2-001
#> 2 core 2 ENSP00000435699 32889642 BRCA2-003
#> 3 core 1 ENSP00000433168 32945108 BRCA2-005
#> 4 core 1 ENSP00000434898 32953977 BRCA2-002
#> 5 <NA> NA <NA> 32970946 BRCA2-006
#> 6 core 1 ENSP00000439902 32889617 BRCA2-201
#> biotype strand logic_name object_type
#> 1 protein_coding 1 ensembl_havana_transcript Transcript
#> 2 protein_coding 1 havana_homo_sapiens_37 Transcript
#> 3 nonsense_mediated_decay 1 havana_homo_sapiens_37 Transcript
#> 4 nonsense_mediated_decay 1 havana_homo_sapiens_37 Transcript
#> 5 retained_intron 1 havana_homo_sapiens_37 Transcript
#> 6 protein_coding 1 ensembl_homo_sapiens_37 Transcript
#> Parent id length species
#> 1 ENSG00000139618 ENST00000380152 10930 homo_sapiens
#> 2 ENSG00000139618 ENST00000530893 2011 homo_sapiens
#> 3 ENSG00000139618 ENST00000528762 495 homo_sapiens
#> 4 ENSG00000139618 ENST00000470094 842 homo_sapiens
#> 5 ENSG00000139618 ENST00000533776 523 homo_sapiens
#> 6 ENSG00000139618 ENST00000544455 10984 homo_sapiens
#>
#> $id
#> [1] "ENSG00000139618"
#>
event <- "SE_17_-_41251792_41249306_41249261_41246877_BRCA1"
queryEnsemblByEvent(event, species="human", assembly="hg19")
#> $Transcript
#> Parent species object_type version strand start
#> 1 ENSG00000012048 human Transcript 3 -1 41196312
#> 2 ENSG00000012048 human Transcript 1 -1 41196822
#> 3 ENSG00000012048 human Transcript 1 -1 41197580
#> 4 ENSG00000012048 human Transcript 1 -1 41197580
#> 5 ENSG00000012048 human Transcript 1 -1 41197580
#> 6 ENSG00000012048 human Transcript 1 -1 41197646
#> 7 ENSG00000012048 human Transcript 2 -1 41197646
#> 8 ENSG00000012048 human Transcript 1 -1 41197695
#> 9 ENSG00000012048 human Transcript 2 -1 41197695
#> 10 ENSG00000012048 human Transcript 1 -1 41215361
#> 11 ENSG00000012048 human Transcript 1 -1 41215361
#> 12 ENSG00000012048 human Transcript 1 -1 41215377
#> 13 ENSG00000012048 human Transcript 1 -1 41219291
#> 14 ENSG00000012048 human Transcript 1 -1 41228505
#> 15 ENSG00000012048 human Transcript 1 -1 41228554
#> 16 ENSG00000012048 human Transcript 1 -1 41243115
#> 17 ENSG00000012048 human Transcript 3 -1 41245587
#> 18 ENSG00000012048 human Transcript 1 -1 41245601
#> 19 ENSG00000012048 human Transcript 1 -1 41245603
#> 20 ENSG00000012048 human Transcript 1 -1 41246129
#> 21 ENSG00000012048 human Transcript 1 -1 41246129
#> 22 ENSG00000012048 human Transcript 1 -1 41246129
#> 23 ENSG00000012048 human Transcript 1 -1 41246187
#> 24 ENSG00000012048 human Transcript 1 -1 41247863
#> 25 ENSG00000012048 human Transcript 1 -1 41251848
#> 26 ENSG00000012048 human Transcript 1 -1 41256206
#> 27 ENSG00000012048 human Transcript 3 -1 41196313
#> 28 ENSG00000012048 human Transcript 3 -1 41196313
#> 29 ENSG00000012048 human Transcript 3 -1 41196313
#> 30 ENSG00000012048 human Transcript 3 -1 41196313
#> 31 ENSG00000012048 human Transcript 4 -1 41196313
#> logic_name assembly_name id
#> 1 ensembl_havana_transcript GRCh37 ENST00000357654
#> 2 ensembl_havana_transcript GRCh37 ENST00000468300
#> 3 havana_homo_sapiens_37 GRCh37 ENST00000586385
#> 4 havana_homo_sapiens_37 GRCh37 ENST00000591534
#> 5 havana_homo_sapiens_37 GRCh37 ENST00000591849
#> 6 ensembl_havana_transcript GRCh37 ENST00000493795
#> 7 ensembl_havana_transcript GRCh37 ENST00000471181
#> 8 havana_homo_sapiens_37 GRCh37 ENST00000461221
#> 9 havana_homo_sapiens_37 GRCh37 ENST00000491747
#> 10 havana_homo_sapiens_37 GRCh37 ENST00000484087
#> 11 havana_homo_sapiens_37 GRCh37 ENST00000478531
#> 12 havana_homo_sapiens_37 GRCh37 ENST00000493919
#> 13 havana_homo_sapiens_37 GRCh37 ENST00000472490
#> 14 havana_homo_sapiens_37 GRCh37 ENST00000487825
#> 15 havana_homo_sapiens_37 GRCh37 ENST00000461574
#> 16 havana_homo_sapiens_37 GRCh37 ENST00000467274
#> 17 havana_homo_sapiens_37 GRCh37 ENST00000412061
#> 18 havana_homo_sapiens_37 GRCh37 ENST00000470026
#> 19 havana_homo_sapiens_37 GRCh37 ENST00000477152
#> 20 havana_homo_sapiens_37 GRCh37 ENST00000492859
#> 21 havana_homo_sapiens_37 GRCh37 ENST00000497488
#> 22 havana_homo_sapiens_37 GRCh37 ENST00000494123
#> 23 havana_homo_sapiens_37 GRCh37 ENST00000473961
#> 24 havana_homo_sapiens_37 GRCh37 ENST00000476777
#> 25 havana_homo_sapiens_37 GRCh37 ENST00000461798
#> 26 havana_homo_sapiens_37 GRCh37 ENST00000489037
#> 27 ensembl_homo_sapiens_37 GRCh37 ENST00000354071
#> 28 ensembl_homo_sapiens_37 GRCh37 ENST00000352993
#> 29 ensembl_homo_sapiens_37 GRCh37 ENST00000346315
#> 30 ensembl_homo_sapiens_37 GRCh37 ENST00000351666
#> 31 ensembl_homo_sapiens_37 GRCh37 ENST00000309486
#> biotype db_type source Translation.db_type
#> 1 protein_coding core ensembl_havana core
#> 2 protein_coding core ensembl_havana core
#> 3 protein_coding core havana core
#> 4 protein_coding core havana core
#> 5 protein_coding core havana core
#> 6 protein_coding core ensembl_havana core
#> 7 protein_coding core ensembl_havana core
#> 8 nonsense_mediated_decay core havana core
#> 9 protein_coding core havana core
#> 10 protein_coding core havana core
#> 11 protein_coding core havana core
#> 12 protein_coding core havana core
#> 13 retained_intron core havana <NA>
#> 14 protein_coding core havana core
#> 15 protein_coding core havana core
#> 16 retained_intron core havana <NA>
#> 17 non_stop_decay core havana core
#> 18 protein_coding core havana core
#> 19 protein_coding core havana core
#> 20 nonsense_mediated_decay core havana core
#> 21 protein_coding core havana core
#> 22 protein_coding core havana core
#> 23 protein_coding core havana core
#> 24 protein_coding core havana core
#> 25 nonsense_mediated_decay core havana core
#> 26 protein_coding core havana core
#> 27 protein_coding core ensembl core
#> 28 protein_coding core ensembl core
#> 29 protein_coding core ensembl core
#> 30 protein_coding core ensembl core
#> 31 protein_coding core ensembl core
#> Translation.end Translation.length Translation.Parent Translation.id
#> 1 41276113 1863 ENST00000357654 ENSP00000350283
#> 2 41276113 699 ENST00000468300 ENSP00000417148
#> 3 41277202 173 ENST00000586385 ENSP00000465818
#> 4 41226495 354 ENST00000591534 ENSP00000467329
#> 5 41202109 96 ENST00000591849 ENSP00000465347
#> 6 41258543 1816 ENST00000493795 ENSP00000418775
#> 7 41276113 1884 ENST00000471181 ENSP00000418960
#> 8 41276113 63 ENST00000461221 ENSP00000418548
#> 9 41276113 759 ENST00000491747 ENSP00000420705
#> 10 41256933 498 ENST00000484087 ENSP00000419481
#> 11 41276113 623 ENST00000478531 ENSP00000420412
#> 12 41258543 572 ENST00000493919 ENSP00000418819
#> 13 NA NA <NA> <NA>
#> 14 41256933 266 ENST00000487825 ENSP00000418212
#> 15 41243841 242 ENST00000461574 ENSP00000417241
#> 16 NA NA <NA> <NA>
#> 17 41247883 437 ENST00000412061 ENSP00000397145
#> 18 41276113 649 ENST00000470026 ENSP00000419274
#> 19 41276113 622 ENST00000477152 ENSP00000419988
#> 20 41276113 59 ENST00000492859 ENSP00000420253
#> 21 41246659 177 ENST00000497488 ENSP00000418986
#> 22 41276113 473 ENST00000494123 ENSP00000419103
#> 23 41256908 319 ENST00000473961 ENSP00000420201
#> 24 41276113 222 ENST00000476777 ENSP00000417554
#> 25 41276113 63 ENST00000461798 ENSP00000417988
#> 26 41276113 98 ENST00000489037 ENSP00000420781
#> 27 41276113 1598 ENST00000354071 ENSP00000326002
#> 28 41276113 721 ENST00000352993 ENSP00000312236
#> 29 41276113 1624 ENST00000346315 ENSP00000246907
#> 30 41276113 680 ENST00000351666 ENSP00000338007
#> 31 41246659 1567 ENST00000309486 ENSP00000310938
#> Translation.species Translation.object_type Translation.start
#> 1 human Translation 41197695
#> 2 human Translation 41197801
#> 3 human Translation 41197695
#> 4 human Translation 41197695
#> 5 human Translation 41197695
#> 6 human Translation 41197695
#> 7 human Translation 41197695
#> 8 human Translation 41256972
#> 9 human Translation 41197695
#> 10 human Translation 41215361
#> 11 human Translation 41215361
#> 12 human Translation 41215377
#> 13 <NA> <NA> NA
#> 14 human Translation 41228505
#> 15 human Translation 41228554
#> 16 <NA> <NA> NA
#> 17 human Translation 41245587
#> 18 human Translation 41245601
#> 19 human Translation 41245603
#> 20 human Translation 41262552
#> 21 human Translation 41246129
#> 22 human Translation 41246129
#> 23 human Translation 41246187
#> 24 human Translation 41247863
#> 25 human Translation 41256972
#> 26 human Translation 41256206
#> 27 human Translation 41197695
#> 28 human Translation 41197695
#> 29 human Translation 41197695
#> 30 human Translation 41197695
#> 31 human Translation 41197695
#> Translation.version seq_region_name end length is_canonical
#> 1 3 17 41277387 7094 0
#> 2 1 17 41277468 3273 0
#> 3 1 17 41277346 781 0
#> 4 1 17 41277346 1282 0
#> 5 1 17 41277346 563 0
#> 6 1 17 41277419 5732 0
#> 7 2 17 41277500 5936 1
#> 8 1 17 41277305 5693 0
#> 9 2 17 41277373 2379 0
#> 10 1 17 41256933 1495 0
#> 11 1 17 41277376 1972 0
#> 12 1 17 41277419 1948 0
#> 13 NA 17 41223083 561 0
#> 14 1 17 41256933 800 0
#> 15 1 17 41243841 726 0
#> 16 NA 17 41277332 4497 0
#> 17 3 17 41247883 1312 0
#> 18 1 17 41277340 2108 0
#> 19 1 17 41277381 1980 0
#> 20 1 17 41277317 1584 0
#> 21 1 17 41277317 779 0
#> 22 1 17 41277467 1612 0
#> 23 1 17 41256908 958 0
#> 24 1 17 41277370 769 0
#> 25 1 17 41277387 582 0
#> 26 1 17 41277338 455 0
#> 27 6 17 41277500 6411 0
#> 28 5 17 41277500 3780 0
#> 29 4 17 41277468 6451 0
#> 30 3 17 41276132 3444 0
#> 31 4 17 41277468 7114 0
#> display_name Exon
#> 1 BRCA1-001 c("17", ....
#> 2 BRCA1-007 c("human....
#> 3 BRCA1-023 c("core"....
#> 4 BRCA1-024 c("core"....
#> 5 BRCA1-025 c("ENSE0....
#> 6 BRCA1-006 c("Exon"....
#> 7 BRCA1-005 c("ENSE0....
#> 8 BRCA1-010 c("GRCh3....
#> 9 BRCA1-014 c(1, 1, ....
#> 10 BRCA1-015 c(1, 1, ....
#> 11 BRCA1-009 c("17", ....
#> 12 BRCA1-008 c(1, 1, ....
#> 13 BRCA1-021 c(1, 1),....
#> 14 BRCA1-019 c("core"....
#> 15 BRCA1-022 c("GRCh3....
#> 16 BRCA1-012 c(1, 1, ....
#> 17 BRCA1-026 c("ENSE0....
#> 18 BRCA1-011 c("17", ....
#> 19 BRCA1-004 c("17", ....
#> 20 BRCA1-002 c("17", ....
#> 21 BRCA1-003 c("ENSE0....
#> 22 BRCA1-013 c(1, 1, ....
#> 23 BRCA1-018 c("Exon"....
#> 24 BRCA1-017 c("ENSE0....
#> 25 BRCA1-020 c("ENSE0....
#> 26 BRCA1-016 c("core"....
#> 27 BRCA1-205 c(1, 1, ....
#> 28 BRCA1-204 c("17", ....
#> 29 BRCA1-202 c("17", ....
#> 30 BRCA1-203 c("human....
#> 31 BRCA1-201 c("ENSE0....
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $object_type
#> [1] "Gene"
#>
#> $species
#> [1] "human"
#>
#> $strand
#> [1] -1
#>
#> $start
#> [1] 41196312
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $version
#> [1] 15
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $db_type
#> [1] "core"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $end
#> [1] 41277500
#>
#> $seq_region_name
#> [1] "17"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $display_name
#> [1] "BRCA1"
#>