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")
#> $start
#> [1] 41196312
#>
#> $object_type
#> [1] "Gene"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $end
#> [1] 41277500
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $Transcript
#> logic_name version id db_type species
#> 1 ensembl_havana_transcript 3 ENST00000357654 core human
#> 2 ensembl_havana_transcript 1 ENST00000468300 core human
#> 3 havana_homo_sapiens_37 1 ENST00000586385 core human
#> 4 havana_homo_sapiens_37 1 ENST00000591534 core human
#> 5 havana_homo_sapiens_37 1 ENST00000591849 core human
#> 6 ensembl_havana_transcript 1 ENST00000493795 core human
#> 7 ensembl_havana_transcript 2 ENST00000471181 core human
#> 8 havana_homo_sapiens_37 1 ENST00000461221 core human
#> 9 havana_homo_sapiens_37 2 ENST00000491747 core human
#> 10 havana_homo_sapiens_37 1 ENST00000484087 core human
#> 11 havana_homo_sapiens_37 1 ENST00000478531 core human
#> 12 havana_homo_sapiens_37 1 ENST00000493919 core human
#> 13 havana_homo_sapiens_37 1 ENST00000472490 core human
#> 14 havana_homo_sapiens_37 1 ENST00000487825 core human
#> 15 havana_homo_sapiens_37 1 ENST00000461574 core human
#> 16 havana_homo_sapiens_37 1 ENST00000467274 core human
#> 17 havana_homo_sapiens_37 3 ENST00000412061 core human
#> 18 havana_homo_sapiens_37 1 ENST00000470026 core human
#> 19 havana_homo_sapiens_37 1 ENST00000477152 core human
#> 20 havana_homo_sapiens_37 1 ENST00000492859 core human
#> 21 havana_homo_sapiens_37 1 ENST00000497488 core human
#> 22 havana_homo_sapiens_37 1 ENST00000494123 core human
#> 23 havana_homo_sapiens_37 1 ENST00000473961 core human
#> 24 havana_homo_sapiens_37 1 ENST00000476777 core human
#> 25 havana_homo_sapiens_37 1 ENST00000461798 core human
#> 26 havana_homo_sapiens_37 1 ENST00000489037 core human
#> 27 ensembl_homo_sapiens_37 3 ENST00000354071 core human
#> 28 ensembl_homo_sapiens_37 3 ENST00000352993 core human
#> 29 ensembl_homo_sapiens_37 3 ENST00000346315 core human
#> 30 ensembl_homo_sapiens_37 3 ENST00000351666 core human
#> 31 ensembl_homo_sapiens_37 4 ENST00000309486 core human
#> seq_region_name is_canonical assembly_name start length end
#> 1 17 0 GRCh37 41196312 7094 41277387
#> 2 17 0 GRCh37 41196822 3273 41277468
#> 3 17 0 GRCh37 41197580 781 41277346
#> 4 17 0 GRCh37 41197580 1282 41277346
#> 5 17 0 GRCh37 41197580 563 41277346
#> 6 17 0 GRCh37 41197646 5732 41277419
#> 7 17 1 GRCh37 41197646 5936 41277500
#> 8 17 0 GRCh37 41197695 5693 41277305
#> 9 17 0 GRCh37 41197695 2379 41277373
#> 10 17 0 GRCh37 41215361 1495 41256933
#> 11 17 0 GRCh37 41215361 1972 41277376
#> 12 17 0 GRCh37 41215377 1948 41277419
#> 13 17 0 GRCh37 41219291 561 41223083
#> 14 17 0 GRCh37 41228505 800 41256933
#> 15 17 0 GRCh37 41228554 726 41243841
#> 16 17 0 GRCh37 41243115 4497 41277332
#> 17 17 0 GRCh37 41245587 1312 41247883
#> 18 17 0 GRCh37 41245601 2108 41277340
#> 19 17 0 GRCh37 41245603 1980 41277381
#> 20 17 0 GRCh37 41246129 1584 41277317
#> 21 17 0 GRCh37 41246129 779 41277317
#> 22 17 0 GRCh37 41246129 1612 41277467
#> 23 17 0 GRCh37 41246187 958 41256908
#> 24 17 0 GRCh37 41247863 769 41277370
#> 25 17 0 GRCh37 41251848 582 41277387
#> 26 17 0 GRCh37 41256206 455 41277338
#> 27 17 0 GRCh37 41196313 6411 41277500
#> 28 17 0 GRCh37 41196313 3780 41277500
#> 29 17 0 GRCh37 41196313 6451 41277468
#> 30 17 0 GRCh37 41196313 3444 41276132
#> 31 17 0 GRCh37 41196313 7114 41277468
#> biotype object_type Parent gencode_primary strand
#> 1 protein_coding Transcript ENSG00000012048 0 -1
#> 2 protein_coding Transcript ENSG00000012048 0 -1
#> 3 protein_coding Transcript ENSG00000012048 0 -1
#> 4 protein_coding Transcript ENSG00000012048 0 -1
#> 5 protein_coding Transcript ENSG00000012048 0 -1
#> 6 protein_coding Transcript ENSG00000012048 0 -1
#> 7 protein_coding Transcript ENSG00000012048 0 -1
#> 8 nonsense_mediated_decay Transcript ENSG00000012048 0 -1
#> 9 protein_coding Transcript ENSG00000012048 0 -1
#> 10 protein_coding Transcript ENSG00000012048 0 -1
#> 11 protein_coding Transcript ENSG00000012048 0 -1
#> 12 protein_coding Transcript ENSG00000012048 0 -1
#> 13 retained_intron Transcript ENSG00000012048 0 -1
#> 14 protein_coding Transcript ENSG00000012048 0 -1
#> 15 protein_coding Transcript ENSG00000012048 0 -1
#> 16 retained_intron Transcript ENSG00000012048 0 -1
#> 17 non_stop_decay Transcript ENSG00000012048 0 -1
#> 18 protein_coding Transcript ENSG00000012048 0 -1
#> 19 protein_coding Transcript ENSG00000012048 0 -1
#> 20 nonsense_mediated_decay Transcript ENSG00000012048 0 -1
#> 21 protein_coding Transcript ENSG00000012048 0 -1
#> 22 protein_coding Transcript ENSG00000012048 0 -1
#> 23 protein_coding Transcript ENSG00000012048 0 -1
#> 24 protein_coding Transcript ENSG00000012048 0 -1
#> 25 nonsense_mediated_decay Transcript ENSG00000012048 0 -1
#> 26 protein_coding Transcript ENSG00000012048 0 -1
#> 27 protein_coding Transcript ENSG00000012048 0 -1
#> 28 protein_coding Transcript ENSG00000012048 0 -1
#> 29 protein_coding Transcript ENSG00000012048 0 -1
#> 30 protein_coding Transcript ENSG00000012048 0 -1
#> 31 protein_coding Transcript ENSG00000012048 0 -1
#> source display_name Exon Translation.species Translation.id
#> 1 ensembl_havana BRCA1-001 c("ENSE0.... human ENSP00000350283
#> 2 ensembl_havana BRCA1-007 c(412774.... human ENSP00000417148
#> 3 havana BRCA1-023 c("17", .... human ENSP00000465818
#> 4 havana BRCA1-024 c("GRCh3.... human ENSP00000467329
#> 5 havana BRCA1-025 c("GRCh3.... human ENSP00000465347
#> 6 ensembl_havana BRCA1-006 c(412774.... human ENSP00000418775
#> 7 ensembl_havana BRCA1-005 c(1, 1, .... human ENSP00000418960
#> 8 havana BRCA1-010 c("ENSE0.... human ENSP00000418548
#> 9 havana BRCA1-014 c(1, 1, .... human ENSP00000420705
#> 10 havana BRCA1-015 c("Exon".... human ENSP00000419481
#> 11 havana BRCA1-009 c("GRCh3.... human ENSP00000420412
#> 12 havana BRCA1-008 c(-1, -1.... human ENSP00000418819
#> 13 havana BRCA1-021 c("ENSE0.... <NA> <NA>
#> 14 havana BRCA1-019 c("GRCh3.... human ENSP00000418212
#> 15 havana BRCA1-022 c("GRCh3.... human ENSP00000417241
#> 16 havana BRCA1-012 c(412773.... <NA> <NA>
#> 17 havana BRCA1-026 c("17", .... human ENSP00000397145
#> 18 havana BRCA1-011 c("core".... human ENSP00000419274
#> 19 havana BRCA1-004 c(412772.... human ENSP00000419988
#> 20 havana BRCA1-002 c("17", .... human ENSP00000420253
#> 21 havana BRCA1-003 c("17", .... human ENSP00000418986
#> 22 havana BRCA1-013 c("ENSE0.... human ENSP00000419103
#> 23 havana BRCA1-018 c("ENSE0.... human ENSP00000420201
#> 24 havana BRCA1-017 c("core".... human ENSP00000417554
#> 25 havana BRCA1-020 c("17", .... human ENSP00000417988
#> 26 havana BRCA1-016 c("17", .... human ENSP00000420781
#> 27 ensembl BRCA1-205 c("Exon".... human ENSP00000326002
#> 28 ensembl BRCA1-204 c(-1, -1.... human ENSP00000312236
#> 29 ensembl BRCA1-202 c("GRCh3.... human ENSP00000246907
#> 30 ensembl BRCA1-203 c("human.... human ENSP00000338007
#> 31 ensembl BRCA1-201 c("17", .... human ENSP00000310938
#> Translation.db_type Translation.end Translation.object_type
#> 1 core 41276113 Translation
#> 2 core 41276113 Translation
#> 3 core 41277202 Translation
#> 4 core 41226495 Translation
#> 5 core 41202109 Translation
#> 6 core 41258543 Translation
#> 7 core 41276113 Translation
#> 8 core 41276113 Translation
#> 9 core 41276113 Translation
#> 10 core 41256933 Translation
#> 11 core 41276113 Translation
#> 12 core 41258543 Translation
#> 13 <NA> NA <NA>
#> 14 core 41256933 Translation
#> 15 core 41243841 Translation
#> 16 <NA> NA <NA>
#> 17 core 41247883 Translation
#> 18 core 41276113 Translation
#> 19 core 41276113 Translation
#> 20 core 41276113 Translation
#> 21 core 41246659 Translation
#> 22 core 41276113 Translation
#> 23 core 41256908 Translation
#> 24 core 41276113 Translation
#> 25 core 41276113 Translation
#> 26 core 41276113 Translation
#> 27 core 41276113 Translation
#> 28 core 41276113 Translation
#> 29 core 41276113 Translation
#> 30 core 41276113 Translation
#> 31 core 41246659 Translation
#> Translation.Parent Translation.start Translation.length Translation.version
#> 1 ENST00000357654 41197695 1863 3
#> 2 ENST00000468300 41197801 699 1
#> 3 ENST00000586385 41197695 173 1
#> 4 ENST00000591534 41197695 354 1
#> 5 ENST00000591849 41197695 96 1
#> 6 ENST00000493795 41197695 1816 1
#> 7 ENST00000471181 41197695 1884 2
#> 8 ENST00000461221 41256972 63 1
#> 9 ENST00000491747 41197695 759 2
#> 10 ENST00000484087 41215361 498 1
#> 11 ENST00000478531 41215361 623 1
#> 12 ENST00000493919 41215377 572 1
#> 13 <NA> NA NA NA
#> 14 ENST00000487825 41228505 266 1
#> 15 ENST00000461574 41228554 242 1
#> 16 <NA> NA NA NA
#> 17 ENST00000412061 41245587 437 3
#> 18 ENST00000470026 41245601 649 1
#> 19 ENST00000477152 41245603 622 1
#> 20 ENST00000492859 41262552 59 1
#> 21 ENST00000497488 41246129 177 1
#> 22 ENST00000494123 41246129 473 1
#> 23 ENST00000473961 41246187 319 1
#> 24 ENST00000476777 41247863 222 1
#> 25 ENST00000461798 41256972 63 1
#> 26 ENST00000489037 41256206 98 1
#> 27 ENST00000354071 41197695 1598 6
#> 28 ENST00000352993 41197695 721 5
#> 29 ENST00000346315 41197695 1624 4
#> 30 ENST00000351666 41197695 680 3
#> 31 ENST00000309486 41197695 1567 4
#>
#> $display_name
#> [1] "BRCA1"
#>
#> $strand
#> [1] -1
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $version
#> [1] 15
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $db_type
#> [1] "core"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $seq_region_name
#> [1] "17"
#>
#> $species
#> [1] "human"
#>
queryEnsemblByGene("ENSG00000139618")
#> $biotype
#> [1] "protein_coding"
#>
#> $end
#> [1] 32973805
#>
#> $version
#> [1] 10
#>
#> $description
#> [1] "breast cancer 2, early onset [Source:HGNC Symbol;Acc:1101]"
#>
#> $object_type
#> [1] "Gene"
#>
#> $display_name
#> [1] "BRCA2"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $seq_region_name
#> [1] "13"
#>
#> $strand
#> [1] 1
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $Transcript
#> species start Exon id db_type gencode_primary
#> 1 homo_sapiens 32889611 c(1, 1, .... ENST00000380152 core 0
#> 2 homo_sapiens 32889642 c(1, 1, .... ENST00000530893 core 0
#> 3 homo_sapiens 32945108 c("core".... ENST00000528762 core 0
#> 4 homo_sapiens 32953977 c(1, 1, .... ENST00000470094 core 0
#> 5 homo_sapiens 32970946 c("GRCh3.... ENST00000533776 core 0
#> 6 homo_sapiens 32889617 c(328898.... ENST00000544455 core 0
#> length logic_name version biotype end
#> 1 10930 ensembl_havana_transcript 3 protein_coding 32973347
#> 2 2011 havana_homo_sapiens_37 2 protein_coding 32907428
#> 3 495 havana_homo_sapiens_37 1 nonsense_mediated_decay 32953632
#> 4 842 havana_homo_sapiens_37 1 nonsense_mediated_decay 32972409
#> 5 523 havana_homo_sapiens_37 1 retained_intron 32972585
#> 6 10984 ensembl_homo_sapiens_37 1 protein_coding 32973805
#> display_name object_type seq_region_name is_canonical assembly_name
#> 1 BRCA2-001 Transcript 13 0 GRCh37
#> 2 BRCA2-003 Transcript 13 0 GRCh37
#> 3 BRCA2-005 Transcript 13 0 GRCh37
#> 4 BRCA2-002 Transcript 13 0 GRCh37
#> 5 BRCA2-006 Transcript 13 0 GRCh37
#> 6 BRCA2-201 Transcript 13 1 GRCh37
#> 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.species Translation.object_type Translation.start
#> 1 homo_sapiens Translation 32890598
#> 2 homo_sapiens Translation 32899266
#> 3 homo_sapiens Translation 32945108
#> 4 homo_sapiens Translation 32953977
#> 5 <NA> <NA> NA
#> 6 homo_sapiens Translation 32890598
#> Translation.version Translation.end Parent strand source
#> 1 3 32972907 ENSG00000139618 1 ensembl_havana
#> 2 2 32907428 ENSG00000139618 1 havana
#> 3 1 32950807 ENSG00000139618 1 havana
#> 4 1 32970229 ENSG00000139618 1 havana
#> 5 NA NA ENSG00000139618 1 havana
#> 6 1 32972907 ENSG00000139618 1 ensembl
#>
#> $start
#> [1] 32889611
#>
#> $species
#> [1] "homo_sapiens"
#>
#> $db_type
#> [1] "core"
#>
#> $id
#> [1] "ENSG00000139618"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $canonical_transcript
#> [1] "ENST00000544455.1"
#>
event <- "SE_17_-_41251792_41249306_41249261_41246877_BRCA1"
queryEnsemblByEvent(event, species="human", assembly="hg19")
#> $strand
#> [1] -1
#>
#> $end
#> [1] 41277500
#>
#> $Transcript
#> end Exon is_canonical strand Parent start
#> 1 41277387 c("17", .... 0 -1 ENSG00000012048 41196312
#> 2 41277468 c(-1, -1.... 0 -1 ENSG00000012048 41196822
#> 3 41277346 c("human.... 0 -1 ENSG00000012048 41197580
#> 4 41277346 c(412773.... 0 -1 ENSG00000012048 41197580
#> 5 41277346 c(1, 1, .... 0 -1 ENSG00000012048 41197580
#> 6 41277419 c("human.... 0 -1 ENSG00000012048 41197646
#> 7 41277500 c("core".... 1 -1 ENSG00000012048 41197646
#> 8 41277305 c("human.... 0 -1 ENSG00000012048 41197695
#> 9 41277373 c(-1, -1.... 0 -1 ENSG00000012048 41197695
#> 10 41256933 c(412568.... 0 -1 ENSG00000012048 41215361
#> 11 41277376 c(412772.... 0 -1 ENSG00000012048 41215361
#> 12 41277419 c("human.... 0 -1 ENSG00000012048 41215377
#> 13 41223083 c("Exon".... 0 -1 ENSG00000012048 41219291
#> 14 41256933 c("human.... 0 -1 ENSG00000012048 41228505
#> 15 41243841 c("core".... 0 -1 ENSG00000012048 41228554
#> 16 41277332 c(-1, -1.... 0 -1 ENSG00000012048 41243115
#> 17 41247883 c("human.... 0 -1 ENSG00000012048 41245587
#> 18 41277340 c(412773.... 0 -1 ENSG00000012048 41245601
#> 19 41277381 c("ENSE0.... 0 -1 ENSG00000012048 41245603
#> 20 41277317 c("human.... 0 -1 ENSG00000012048 41246129
#> 21 41277317 c("17", .... 0 -1 ENSG00000012048 41246129
#> 22 41277467 c(412772.... 0 -1 ENSG00000012048 41246129
#> 23 41256908 c("GRCh3.... 0 -1 ENSG00000012048 41246187
#> 24 41277370 c("ENSE0.... 0 -1 ENSG00000012048 41247863
#> 25 41277387 c("human.... 0 -1 ENSG00000012048 41251848
#> 26 41277338 c("human.... 0 -1 ENSG00000012048 41256206
#> 27 41277500 c(-1, -1.... 0 -1 ENSG00000012048 41196313
#> 28 41277500 c(1, 1, .... 0 -1 ENSG00000012048 41196313
#> 29 41277468 c(-1, -1.... 0 -1 ENSG00000012048 41196313
#> 30 41276132 c("ENSE0.... 0 -1 ENSG00000012048 41196313
#> 31 41277468 c("core".... 0 -1 ENSG00000012048 41196313
#> id version gencode_primary seq_region_name object_type
#> 1 ENST00000357654 3 0 17 Transcript
#> 2 ENST00000468300 1 0 17 Transcript
#> 3 ENST00000586385 1 0 17 Transcript
#> 4 ENST00000591534 1 0 17 Transcript
#> 5 ENST00000591849 1 0 17 Transcript
#> 6 ENST00000493795 1 0 17 Transcript
#> 7 ENST00000471181 2 0 17 Transcript
#> 8 ENST00000461221 1 0 17 Transcript
#> 9 ENST00000491747 2 0 17 Transcript
#> 10 ENST00000484087 1 0 17 Transcript
#> 11 ENST00000478531 1 0 17 Transcript
#> 12 ENST00000493919 1 0 17 Transcript
#> 13 ENST00000472490 1 0 17 Transcript
#> 14 ENST00000487825 1 0 17 Transcript
#> 15 ENST00000461574 1 0 17 Transcript
#> 16 ENST00000467274 1 0 17 Transcript
#> 17 ENST00000412061 3 0 17 Transcript
#> 18 ENST00000470026 1 0 17 Transcript
#> 19 ENST00000477152 1 0 17 Transcript
#> 20 ENST00000492859 1 0 17 Transcript
#> 21 ENST00000497488 1 0 17 Transcript
#> 22 ENST00000494123 1 0 17 Transcript
#> 23 ENST00000473961 1 0 17 Transcript
#> 24 ENST00000476777 1 0 17 Transcript
#> 25 ENST00000461798 1 0 17 Transcript
#> 26 ENST00000489037 1 0 17 Transcript
#> 27 ENST00000354071 3 0 17 Transcript
#> 28 ENST00000352993 3 0 17 Transcript
#> 29 ENST00000346315 3 0 17 Transcript
#> 30 ENST00000351666 3 0 17 Transcript
#> 31 ENST00000309486 4 0 17 Transcript
#> assembly_name display_name Translation.end Translation.id
#> 1 GRCh37 BRCA1-001 41276113 ENSP00000350283
#> 2 GRCh37 BRCA1-007 41276113 ENSP00000417148
#> 3 GRCh37 BRCA1-023 41277202 ENSP00000465818
#> 4 GRCh37 BRCA1-024 41226495 ENSP00000467329
#> 5 GRCh37 BRCA1-025 41202109 ENSP00000465347
#> 6 GRCh37 BRCA1-006 41258543 ENSP00000418775
#> 7 GRCh37 BRCA1-005 41276113 ENSP00000418960
#> 8 GRCh37 BRCA1-010 41276113 ENSP00000418548
#> 9 GRCh37 BRCA1-014 41276113 ENSP00000420705
#> 10 GRCh37 BRCA1-015 41256933 ENSP00000419481
#> 11 GRCh37 BRCA1-009 41276113 ENSP00000420412
#> 12 GRCh37 BRCA1-008 41258543 ENSP00000418819
#> 13 GRCh37 BRCA1-021 NA <NA>
#> 14 GRCh37 BRCA1-019 41256933 ENSP00000418212
#> 15 GRCh37 BRCA1-022 41243841 ENSP00000417241
#> 16 GRCh37 BRCA1-012 NA <NA>
#> 17 GRCh37 BRCA1-026 41247883 ENSP00000397145
#> 18 GRCh37 BRCA1-011 41276113 ENSP00000419274
#> 19 GRCh37 BRCA1-004 41276113 ENSP00000419988
#> 20 GRCh37 BRCA1-002 41276113 ENSP00000420253
#> 21 GRCh37 BRCA1-003 41246659 ENSP00000418986
#> 22 GRCh37 BRCA1-013 41276113 ENSP00000419103
#> 23 GRCh37 BRCA1-018 41256908 ENSP00000420201
#> 24 GRCh37 BRCA1-017 41276113 ENSP00000417554
#> 25 GRCh37 BRCA1-020 41276113 ENSP00000417988
#> 26 GRCh37 BRCA1-016 41276113 ENSP00000420781
#> 27 GRCh37 BRCA1-205 41276113 ENSP00000326002
#> 28 GRCh37 BRCA1-204 41276113 ENSP00000312236
#> 29 GRCh37 BRCA1-202 41276113 ENSP00000246907
#> 30 GRCh37 BRCA1-203 41276113 ENSP00000338007
#> 31 GRCh37 BRCA1-201 41246659 ENSP00000310938
#> Translation.object_type Translation.version Translation.length
#> 1 Translation 3 1863
#> 2 Translation 1 699
#> 3 Translation 1 173
#> 4 Translation 1 354
#> 5 Translation 1 96
#> 6 Translation 1 1816
#> 7 Translation 2 1884
#> 8 Translation 1 63
#> 9 Translation 2 759
#> 10 Translation 1 498
#> 11 Translation 1 623
#> 12 Translation 1 572
#> 13 <NA> NA NA
#> 14 Translation 1 266
#> 15 Translation 1 242
#> 16 <NA> NA NA
#> 17 Translation 3 437
#> 18 Translation 1 649
#> 19 Translation 1 622
#> 20 Translation 1 59
#> 21 Translation 1 177
#> 22 Translation 1 473
#> 23 Translation 1 319
#> 24 Translation 1 222
#> 25 Translation 1 63
#> 26 Translation 1 98
#> 27 Translation 6 1598
#> 28 Translation 5 721
#> 29 Translation 4 1624
#> 30 Translation 3 680
#> 31 Translation 4 1567
#> Translation.Parent Translation.species Translation.db_type Translation.start
#> 1 ENST00000357654 human core 41197695
#> 2 ENST00000468300 human core 41197801
#> 3 ENST00000586385 human core 41197695
#> 4 ENST00000591534 human core 41197695
#> 5 ENST00000591849 human core 41197695
#> 6 ENST00000493795 human core 41197695
#> 7 ENST00000471181 human core 41197695
#> 8 ENST00000461221 human core 41256972
#> 9 ENST00000491747 human core 41197695
#> 10 ENST00000484087 human core 41215361
#> 11 ENST00000478531 human core 41215361
#> 12 ENST00000493919 human core 41215377
#> 13 <NA> <NA> <NA> NA
#> 14 ENST00000487825 human core 41228505
#> 15 ENST00000461574 human core 41228554
#> 16 <NA> <NA> <NA> NA
#> 17 ENST00000412061 human core 41245587
#> 18 ENST00000470026 human core 41245601
#> 19 ENST00000477152 human core 41245603
#> 20 ENST00000492859 human core 41262552
#> 21 ENST00000497488 human core 41246129
#> 22 ENST00000494123 human core 41246129
#> 23 ENST00000473961 human core 41246187
#> 24 ENST00000476777 human core 41247863
#> 25 ENST00000461798 human core 41256972
#> 26 ENST00000489037 human core 41256206
#> 27 ENST00000354071 human core 41197695
#> 28 ENST00000352993 human core 41197695
#> 29 ENST00000346315 human core 41197695
#> 30 ENST00000351666 human core 41197695
#> 31 ENST00000309486 human core 41197695
#> biotype length logic_name db_type species
#> 1 protein_coding 7094 ensembl_havana_transcript core human
#> 2 protein_coding 3273 ensembl_havana_transcript core human
#> 3 protein_coding 781 havana_homo_sapiens_37 core human
#> 4 protein_coding 1282 havana_homo_sapiens_37 core human
#> 5 protein_coding 563 havana_homo_sapiens_37 core human
#> 6 protein_coding 5732 ensembl_havana_transcript core human
#> 7 protein_coding 5936 ensembl_havana_transcript core human
#> 8 nonsense_mediated_decay 5693 havana_homo_sapiens_37 core human
#> 9 protein_coding 2379 havana_homo_sapiens_37 core human
#> 10 protein_coding 1495 havana_homo_sapiens_37 core human
#> 11 protein_coding 1972 havana_homo_sapiens_37 core human
#> 12 protein_coding 1948 havana_homo_sapiens_37 core human
#> 13 retained_intron 561 havana_homo_sapiens_37 core human
#> 14 protein_coding 800 havana_homo_sapiens_37 core human
#> 15 protein_coding 726 havana_homo_sapiens_37 core human
#> 16 retained_intron 4497 havana_homo_sapiens_37 core human
#> 17 non_stop_decay 1312 havana_homo_sapiens_37 core human
#> 18 protein_coding 2108 havana_homo_sapiens_37 core human
#> 19 protein_coding 1980 havana_homo_sapiens_37 core human
#> 20 nonsense_mediated_decay 1584 havana_homo_sapiens_37 core human
#> 21 protein_coding 779 havana_homo_sapiens_37 core human
#> 22 protein_coding 1612 havana_homo_sapiens_37 core human
#> 23 protein_coding 958 havana_homo_sapiens_37 core human
#> 24 protein_coding 769 havana_homo_sapiens_37 core human
#> 25 nonsense_mediated_decay 582 havana_homo_sapiens_37 core human
#> 26 protein_coding 455 havana_homo_sapiens_37 core human
#> 27 protein_coding 6411 ensembl_homo_sapiens_37 core human
#> 28 protein_coding 3780 ensembl_homo_sapiens_37 core human
#> 29 protein_coding 6451 ensembl_homo_sapiens_37 core human
#> 30 protein_coding 3444 ensembl_homo_sapiens_37 core human
#> 31 protein_coding 7114 ensembl_homo_sapiens_37 core human
#> source
#> 1 ensembl_havana
#> 2 ensembl_havana
#> 3 havana
#> 4 havana
#> 5 havana
#> 6 ensembl_havana
#> 7 ensembl_havana
#> 8 havana
#> 9 havana
#> 10 havana
#> 11 havana
#> 12 havana
#> 13 havana
#> 14 havana
#> 15 havana
#> 16 havana
#> 17 havana
#> 18 havana
#> 19 havana
#> 20 havana
#> 21 havana
#> 22 havana
#> 23 havana
#> 24 havana
#> 25 havana
#> 26 havana
#> 27 ensembl
#> 28 ensembl
#> 29 ensembl
#> 30 ensembl
#> 31 ensembl
#>
#> $start
#> [1] 41196312
#>
#> $seq_region_name
#> [1] "17"
#>
#> $version
#> [1] 15
#>
#> $object_type
#> [1] "Gene"
#>
#> $assembly_name
#> [1] "GRCh37"
#>
#> $display_name
#> [1] "BRCA1"
#>
#> $logic_name
#> [1] "ensembl_havana_gene_homo_sapiens_37"
#>
#> $description
#> [1] "breast cancer 1, early onset [Source:HGNC Symbol;Acc:1100]"
#>
#> $biotype
#> [1] "protein_coding"
#>
#> $canonical_transcript
#> [1] "ENST00000471181.2"
#>
#> $id
#> [1] "ENSG00000012048"
#>
#> $source
#> [1] "ensembl_havana"
#>
#> $db_type
#> [1] "core"
#>
#> $species
#> [1] "human"
#>