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Center for Computational Systems Medicine
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Gene summary

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Gene structures and expression levels

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Exon skipping events with PSIs in TCGA

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Exon skipping events with PSIs in GTEx

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Open reading frame (ORF) annotation in the exon skipping event

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Exon skipping events in the canonical protein sequence

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SNVs in the skipped exons with depth of coverage

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Splicing Quantitative Trait Loci (sQTLs) in the skipped exons

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon

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Related drugs with this gene

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Related diseases with this gene

Gene summary for EPRS

check button Gene summary
Gene informationGene symbol

EPRS

Gene ID

2058

Gene nameglutamyl-prolyl-tRNA synthetase
SynonymsEARS|GLUPRORS|HLD15|PARS|PIG32|QARS|QPRS
Cytomap

1q41

Type of geneprotein-coding
Descriptionbifunctional glutamate/proline--tRNA ligasebifunctional aminoacyl-tRNA synthetasecell proliferation-inducing gene 32 proteinglutamate tRNA ligaseglutamatyl-prolyl-tRNA synthetaseglutaminyl-tRNA synthetaseproliferation-inducing gene 32 proteinprolif
Modification date20180523
UniProtAcc

P07814

ContextPubMed: EPRS [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract]
- Title (PMID)

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
EPRS

GO:0006433

prolyl-tRNA aminoacylation

24100331

EPRS

GO:0017148

negative regulation of translation

23071094

EPRS

GO:0071346

cellular response to interferon-gamma

15479637


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Exon skipping events across known transcript of Ensembl for EPRS from UCSC genome browser

check buttonSkipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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Gene isoform structures and expression levels for EPRS

check button Expression levels of gene isoforms across TCGA.
gencode gene structure

check button Expression levels of gene isoforms across GTEx.
gencode gene structure


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Exon skipping events with PSIs in TCGA for EPRS

check button Information of exkip skipping event in TCGA.
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_370521220142399:220142464:220145410:220145489:220146579:220146740220145410:220145489ENSG00000136628.13ENST00000366923.3
exon_skip_370531220146579:220146740:220151887:220152061:220152759:220152957220151887:220152061ENSG00000136628.13ENST00000366923.3
exon_skip_370551220154719:220154799:220156113:220156186:220156530:220156740220156113:220156186ENSG00000136628.13ENST00000366923.3
exon_skip_370561220161931:220162165:220170324:220170684:220174479:220174597220170324:220170684ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370581220170517:220170684:220174479:220174597:220178589:220178702220174479:220174597ENSG00000136628.13ENST00000366923.3,ENST00000609181.1,ENST00000464052.1
exon_skip_370591220184287:220184398:220191467:220191488:220191790:220191850220191467:220191488ENSG00000136628.13ENST00000609181.1
exon_skip_370601220184287:220184398:220191790:220191850:220192336:220192421220191790:220191850ENSG00000136628.13ENST00000366923.3
exon_skip_370611220192336:220192421:220193329:220193563:220195688:220195860220193329:220193563ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370631220197605:220197798:220198473:220198600:220203727:220203822220198473:220198600ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370641220198473:220198600:220203727:220203822:220205728:220205868220203727:220203822ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370661220205728:220205868:220206843:220207000:220208255:220208355220206843:220207000ENSG00000136628.13ENST00000477030.2,ENST00000366923.3,ENST00000609181.1
exon_skip_370671220208255:220208355:220213526:220213611:220219684:220219793220213526:220213611ENSG00000136628.13ENST00000477030.2,ENST00000609181.1

check button PSI values of skipped exons in TCGA.
psi tcga

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Exon skipping events with PSIs in GTEx for EPRS

check button Information of exkip skipping event in GTEx
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_370521220142399:220142464:220145410:220145489:220146579:220146740220145410:220145489ENSG00000136628.13ENST00000366923.3
exon_skip_370531220146579:220146740:220151887:220152061:220152759:220152957220151887:220152061ENSG00000136628.13ENST00000366923.3
exon_skip_370551220154719:220154799:220156113:220156186:220156530:220156740220156113:220156186ENSG00000136628.13ENST00000366923.3
exon_skip_370561220161931:220162165:220170324:220170684:220174479:220174597220170324:220170684ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370581220170517:220170684:220174479:220174597:220178589:220178702220174479:220174597ENSG00000136628.13ENST00000366923.3,ENST00000609181.1,ENST00000464052.1
exon_skip_370591220184287:220184398:220191467:220191488:220191790:220191850220191467:220191488ENSG00000136628.13ENST00000609181.1
exon_skip_370601220184287:220184398:220191790:220191850:220192336:220192421220191790:220191850ENSG00000136628.13ENST00000366923.3
exon_skip_370611220192336:220192421:220193329:220193563:220195688:220195860220193329:220193563ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370631220197605:220197798:220198473:220198600:220203727:220203822220198473:220198600ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370641220198473:220198600:220203727:220203822:220205728:220205868220203727:220203822ENSG00000136628.13ENST00000366923.3,ENST00000609181.1
exon_skip_370661220205728:220205868:220206843:220207000:220208255:220208355220206843:220207000ENSG00000136628.13ENST00000366923.3,ENST00000609181.1,ENST00000477030.2
exon_skip_370671220208255:220208355:220213526:220213611:220219684:220219793220213526:220213611ENSG00000136628.13ENST00000609181.1,ENST00000477030.2

check button PSI values of skipped exons in GTEx.
psi gtex

* Skipped exon sequences.

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Open reading frame (ORF) annotation in the exon skipping event for EPRS

check button Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST00000366923220145410220145489Frame-shift
ENST00000366923220156113220156186Frame-shift
ENST00000366923220174479220174597Frame-shift
ENST00000366923220198473220198600Frame-shift
ENST00000366923220203727220203822Frame-shift
ENST00000366923220206843220207000Frame-shift
ENST00000366923220151887220152061In-frame
ENST00000366923220170324220170684In-frame
ENST00000366923220191790220191850In-frame
ENST00000366923220193329220193563In-frame

check button Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms.
ENSTStart of skipped exonEnd of skipped exonORF
ENST00000366923220145410220145489Frame-shift
ENST00000366923220156113220156186Frame-shift
ENST00000366923220174479220174597Frame-shift
ENST00000366923220198473220198600Frame-shift
ENST00000366923220203727220203822Frame-shift
ENST00000366923220206843220207000Frame-shift
ENST00000366923220151887220152061In-frame
ENST00000366923220170324220170684In-frame
ENST00000366923220191790220191850In-frame
ENST00000366923220193329220193563In-frame

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Infer the effects of exon skipping event on protein functional features for EPRS

check button Exon skipping at the protein sequence level and followed lost functional features.
* Click on the image to enlarge it in a new window.
prot feature distribution

check button Loci of skipped exons in TCGA across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000003669235031151222019332922019356313861619372449
ENST000003669235031151222019179022019185017051764478498
ENST000003669235031151222017032422017068424522811727847
ENST00000366923503115122201518872201520614180435313031361

check button Loci of skipped exons in GTEx across genomic, transcript, and protein sequence levels of In-frame cases.
ENSTLength of mRNALength of AA seq.Genomic startGenomic endmRNA startmRNA endAA startAA end
ENST000003669235031151222019332922019356313861619372449
ENST000003669235031151222019179022019185017051764478498
ENST000003669235031151222017032422017068424522811727847
ENST00000366923503115122201518872201520614180435313031361

check button Lost protein functional features of individual exon skipping events in TCGA.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature


check button Lost protein functional features of individual exon skipping events in GTEx.
UniProt acc.Start of exon skipping (AA)End of exon skipping (AA)Protein feature start (AA)Protein feature end (AA)Category of protein featureDescription of feature


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SNVs in the skipped exons for EPRS

check button - Lollipop plot for presenting exon skipping associated SNVs.
* Click on the image to enlarge it in a new window.
lollipop

check button - Differential PSIs between mutated versus non-mutated samples.
EPRS_LIHC_exon_skip_37056_psi_boxplot.png
boxplot

check button - Non-synonymous mutations located in the skipped exons in TCGA.
Cancer typeSampleESIDSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
COADTCGA-AD-6895-01exon_skip_37058
220174480220174597220174484220174484Frame_Shift_DelT-p.N726fs
STADTCGA-B7-A5TI-01exon_skip_37058
220174480220174597220174484220174484Frame_Shift_DelT-p.N726fs
UCECTCGA-BS-A0U8-01exon_skip_37058
220174480220174597220174574220174574Frame_Shift_DelG-p.P696fs
LIHCTCGA-DD-A3A1-01exon_skip_37064
220203728220203822220203779220203779Frame_Shift_DelG-p.P191fs
LIHCTCGA-DD-A3A0-01exon_skip_37064
220203728220203822220203793220203793Frame_Shift_DelT-p.K186fs
LIHCTCGA-DD-A39Y-01exon_skip_37064
220203728220203822220203809220203809Frame_Shift_DelT-p.K181fs
UCECTCGA-B5-A0K9-01exon_skip_37066
220206844220207000220206845220206845Frame_Shift_DelT-p.G130_splice
LIHCTCGA-BC-A112-01exon_skip_37056
220170325220170684220170662220170663Frame_Shift_Ins-Tp.T735fs
UCECTCGA-AP-A0LD-01exon_skip_37053
220151888220152061220151974220151974Nonsense_MutationGAp.R1333*
SKCMTCGA-GN-A262-06exon_skip_37056
220170325220170684220170519220170519Nonsense_MutationGAp.Q783*
SKCMTCGA-GN-A262-06exon_skip_37056
220170325220170684220170519220170519Nonsense_MutationGAp.Q783X
BLCATCGA-GV-A3JX-01exon_skip_37058
220174480220174597220174523220174523Nonsense_MutationGTp.S713*
SKCMTCGA-D9-A6EC-06exon_skip_37061
220193330220193563220193455220193455Nonsense_MutationCTp.W408*
SKCMTCGA-D9-A6EC-06exon_skip_37061
220193330220193563220193455220193455Nonsense_MutationCTp.W408X
SKCMTCGA-D9-A6EC-06exon_skip_37061
220193330220193563220193456220193456Nonsense_MutationCTp.W408*
SKCMTCGA-D9-A6EC-06exon_skip_37061
220193330220193563220193456220193456Nonsense_MutationCTp.W408X
STADTCGA-VQ-A8P2-01exon_skip_37053
220151888220152061220152063220152063Splice_SiteTC.
LIHCTCGA-EP-A2KB-01exon_skip_37056
220170325220170684220170686220170686Splice_SiteTC.

check button - Depth of coverage in the three exons composing exon skipping event
Depth of coverage in three exonsMutation description
EPRS_220161931_220162165_220170324_220170684_220174479_220174597_TCGA-EP-A2KB-01Sample: TCGA-EP-A2KB-01
Cancer type: LIHC
ESID: exon_skip_37056
Skipped exon start: 220170325
Skipped exon end: 220170684
Mutation start: 220170686
Mutation end: 220170686
Mutation type: Splice_Site
Reference seq: T
Mutation seq: C
AAchange: .
exon_skip_368737_LIHC_TCGA-EP-A2KB-01.png
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exon_skip_368739_LIHC_TCGA-EP-A2KB-01.png
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exon_skip_37056_LIHC_TCGA-EP-A2KB-01.png
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EPRS_220161931_220162165_220170324_220170684_220174479_220174597_TCGA-BC-A112-01Sample: TCGA-BC-A112-01
Cancer type: LIHC
ESID: exon_skip_37056
Skipped exon start: 220170325
Skipped exon end: 220170684
Mutation start: 220170662
Mutation end: 220170663
Mutation type: Frame_Shift_Ins
Reference seq: -
Mutation seq: T
AAchange: p.T735fs
exon_skip_114200_LIHC_TCGA-BC-A112-01.png
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exon_skip_131894_LIHC_TCGA-BC-A112-01.png
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exon_skip_135820_LIHC_TCGA-BC-A112-01.png
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exon_skip_138911_LIHC_TCGA-BC-A112-01.png
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exon_skip_141587_LIHC_TCGA-BC-A112-01.png
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exon_skip_142606_LIHC_TCGA-BC-A112-01.png
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exon_skip_146695_LIHC_TCGA-BC-A112-01.png
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exon_skip_146697_LIHC_TCGA-BC-A112-01.png
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exon_skip_152962_LIHC_TCGA-BC-A112-01.png
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exon_skip_155765_LIHC_TCGA-BC-A112-01.png
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exon_skip_1757_LIHC_TCGA-BC-A112-01.png
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exon_skip_1879_LIHC_TCGA-BC-A112-01.png
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exon_skip_1881_LIHC_TCGA-BC-A112-01.png
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exon_skip_266_LIHC_TCGA-BC-A112-01.png
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exon_skip_284527_LIHC_TCGA-BC-A112-01.png
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exon_skip_286998_LIHC_TCGA-BC-A112-01.png
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exon_skip_293546_LIHC_TCGA-BC-A112-01.png
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exon_skip_293549_LIHC_TCGA-BC-A112-01.png
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exon_skip_306900_LIHC_TCGA-BC-A112-01.png
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exon_skip_311841_LIHC_TCGA-BC-A112-01.png
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exon_skip_325884_LIHC_TCGA-BC-A112-01.png
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exon_skip_326432_LIHC_TCGA-BC-A112-01.png
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exon_skip_32825_LIHC_TCGA-BC-A112-01.png
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exon_skip_331787_LIHC_TCGA-BC-A112-01.png
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exon_skip_337208_LIHC_TCGA-BC-A112-01.png
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exon_skip_337747_LIHC_TCGA-BC-A112-01.png
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exon_skip_339045_LIHC_TCGA-BC-A112-01.png
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exon_skip_344031_LIHC_TCGA-BC-A112-01.png
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exon_skip_35548_LIHC_TCGA-BC-A112-01.png
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exon_skip_35556_LIHC_TCGA-BC-A112-01.png
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exon_skip_359720_LIHC_TCGA-BC-A112-01.png
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exon_skip_37056_LIHC_TCGA-BC-A112-01.png
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exon_skip_37483_LIHC_TCGA-BC-A112-01.png
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exon_skip_37491_LIHC_TCGA-BC-A112-01.png
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exon_skip_375724_LIHC_TCGA-BC-A112-01.png
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exon_skip_378789_LIHC_TCGA-BC-A112-01.png
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exon_skip_386291_LIHC_TCGA-BC-A112-01.png
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exon_skip_41850_LIHC_TCGA-BC-A112-01.png
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exon_skip_435931_LIHC_TCGA-BC-A112-01.png
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exon_skip_436296_LIHC_TCGA-BC-A112-01.png
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exon_skip_438393_LIHC_TCGA-BC-A112-01.png
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exon_skip_443977_LIHC_TCGA-BC-A112-01.png
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exon_skip_444190_LIHC_TCGA-BC-A112-01.png
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exon_skip_44538_LIHC_TCGA-BC-A112-01.png
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exon_skip_449944_LIHC_TCGA-BC-A112-01.png
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exon_skip_458520_LIHC_TCGA-BC-A112-01.png
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exon_skip_460075_LIHC_TCGA-BC-A112-01.png
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exon_skip_472635_LIHC_TCGA-BC-A112-01.png
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exon_skip_489149_LIHC_TCGA-BC-A112-01.png
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exon_skip_492152_LIHC_TCGA-BC-A112-01.png
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exon_skip_49506_LIHC_TCGA-BC-A112-01.png
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exon_skip_5044_LIHC_TCGA-BC-A112-01.png
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exon_skip_512559_LIHC_TCGA-BC-A112-01.png
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exon_skip_514460_LIHC_TCGA-BC-A112-01.png
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exon_skip_514990_LIHC_TCGA-BC-A112-01.png
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exon_skip_55171_LIHC_TCGA-BC-A112-01.png
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exon_skip_55175_LIHC_TCGA-BC-A112-01.png
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exon_skip_56847_LIHC_TCGA-BC-A112-01.png
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exon_skip_57586_LIHC_TCGA-BC-A112-01.png
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exon_skip_57892_LIHC_TCGA-BC-A112-01.png
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exon_skip_58035_LIHC_TCGA-BC-A112-01.png
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exon_skip_6399_LIHC_TCGA-BC-A112-01.png
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exon_skip_77132_LIHC_TCGA-BC-A112-01.png
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check button - Non-synonymous mutations located in the skipped exons in CCLE.
SampleSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
D336MG_CENTRAL_NERVOUS_SYSTEM220156114220156186220156177220156177Frame_Shift_DelC-p.V1104fs
UMUC14_URINARY_TRACT220170325220170684220170387220170388Frame_Shift_DelAC-p.Y827fs
LXF289_LUNG220145411220145489220145467220145467Missense_MutationGCp.H1423D
HCC2450_LUNG220151888220152061220151896220151896Missense_MutationCTp.E1359K
D341MED_CENTRAL_NERVOUS_SYSTEM220151888220152061220151973220151973Missense_MutationCTp.R1333Q
HCC1569_BREAST220151888220152061220152006220152006Missense_MutationGAp.A1322V
JSC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220151888220152061220152010220152010Missense_MutationCTp.E1321K
TGBC11TKB_STOMACH220151888220152061220152030220152030Missense_MutationGAp.A1314V
SNU1040_LARGE_INTESTINE220151888220152061220152037220152037Missense_MutationTCp.T1312A
KMH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220151888220152061220152058220152058Missense_MutationCAp.V1305L
ACN_AUTONOMIC_GANGLIA220170325220170684220170405220170405Missense_MutationGTp.L821M
CCK81_LARGE_INTESTINE220170325220170684220170584220170584Missense_MutationCGp.G761A
DMS454_LUNG220170325220170684220170597220170597Missense_MutationCAp.V757L
HEC251_ENDOMETRIUM220170325220170684220170650220170650Missense_MutationGTp.S739Y
NCIH2087_LUNG220170325220170684220170662220170662Missense_MutationCTp.R735K
NCIH1703_LUNG220174480220174597220174502220174502Missense_MutationTGp.K720T
CORL321_PLEURA220193330220193563220193337220193337Missense_MutationCGp.D448H
SNU81_LARGE_INTESTINE220193330220193563220193357220193357Missense_MutationAGp.F441S
KMS12BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220193330220193563220193412220193412Missense_MutationACp.Y423D
TE9_OESOPHAGUS220193330220193563220193448220193448Missense_MutationCTp.E411K
EFM19_BREAST220193330220193563220193514220193514Missense_MutationCAp.G389C
SNU1040_LARGE_INTESTINE220193330220193563220193540220193540Missense_MutationGTp.A380D
JHUEM1_ENDOMETRIUM220198474220198600220198489220198489Missense_MutationCAp.K245N
MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220198474220198600220198549220198549Missense_MutationCAp.Q225H
NCIH2110_LUNG220198474220198600220198574220198574Missense_MutationGCp.A217G
CW2_LARGE_INTESTINE220203728220203822220203756220203756Missense_MutationTCp.T199A
LS411N_LARGE_INTESTINE220213527220213611220213533220213533Missense_MutationATp.V42D
CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220213527220213611220213570220213570Missense_MutationTCp.I30V
GSU_STOMACH220213527220213611220213580220213580Missense_MutationGCp.D26E
MOLT3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220151888220152061220151974220151974Nonsense_MutationGAp.R1333*
MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE220151888220152061220151974220151974Nonsense_MutationGAp.R1333*
NCIH2066_LUNG220193330220193563220193433220193433Nonsense_MutationTAp.R416*
KYSE450_OESOPHAGUS220203728220203822220203729220203729Splice_SiteCGp.G208R

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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for EPRS

check button sQTL information located at the skipped exons.
Exon skip IDChromosomeThree exonsSkippped exonENSTCancer typeSNP idLocationDNA change (ref/var)P-value

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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for EPRS


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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for EPRS


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RelatedDrugs for EPRS

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
P07814DB00142Glutamic AcidBifunctional glutamate/proline--tRNA ligasesmall moleculeapproved|nutraceutical

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RelatedDiseases for EPRS

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource