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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 TARS

check button Gene summary
Gene informationGene symbol

TARS

Gene ID

6897

Gene namethreonyl-tRNA synthetase
SynonymsThrRS
Cytomap

5p13.3

Type of geneprotein-coding
Descriptionthreonine--tRNA ligase, cytoplasmicthreonine tRNA ligase 1, cytoplasmicthreonyl-tRNA synthetase, cytoplasmic
Modification date20180523
UniProtAcc

P26639

ContextPubMed: TARS [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

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Exon skipping events across known transcript of Ensembl for TARS 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 TARS

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 TARS

check button Information of exkip skipping event in TCGA.
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_434288533441151:33441249:33445429:33445510:33448646:3344883633445429:33445510ENSG00000113407.9ENST00000455217.2,ENST00000502553.1,ENST00000507716.1,ENST00000414361.2,ENST00000265112.3,ENST00000505012.1,ENST00000514259.1
exon_skip_434292533445429:33445510:33446712:33446870:33448646:3344883633446712:33446870ENSG00000113407.9ENST00000513066.1
exon_skip_434293533445429:33445510:33446749:33446870:33448646:3344883633446749:33446870ENSG00000113407.9ENST00000509731.1
exon_skip_434294533445429:33445510:33448646:33448837:33453393:3345345133448646:33448837ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000514259.1
exon_skip_434295533445429:33445510:33448646:33448837:33453398:3345351733448646:33448837ENSG00000113407.9ENST00000505012.1
exon_skip_434297533445429:33445510:33453393:33453517:33455049:3345511733453393:33453517ENSG00000113407.9ENST00000541634.1,ENST00000508361.1
exon_skip_434305533448646:33448837:33452445:33452544:33453393:3345351733452445:33452544ENSG00000113407.9ENST00000455217.2
exon_skip_434306533448646:33448837:33453393:33453517:33455049:3345511733453393:33453517ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000509731.1
exon_skip_434307533448646:33448837:33453398:33453517:33455049:3345511733453398:33453517ENSG00000113407.9ENST00000505012.1
exon_skip_434308533456138:33456171:33456253:33456332:33457361:3345750833456253:33456332ENSG00000113407.9ENST00000455217.2,ENST00000502553.1,ENST00000541634.1,ENST00000507716.1,ENST00000414361.2,ENST00000265112.3,ENST00000504698.1,ENST00000508361.1,ENST00000509731.1
exon_skip_434309533462010:33462111:33462203:33462308:33463857:3346393033462203:33462308ENSG00000113407.9ENST00000509410.1,ENST00000455217.2,ENST00000502553.1,ENST00000541634.1,ENST00000507716.1,ENST00000414361.2,ENST00000265112.3,ENST00000508361.1,ENST00000509731.1
exon_skip_434310533462203:33462308:33463857:33463930:33466975:3346702233463857:33463930ENSG00000113407.9ENST00000455217.2,ENST00000502553.1,ENST00000541634.1,ENST00000507716.1,ENST00000414361.2,ENST00000265112.3,ENST00000508361.1,ENST00000509731.1
exon_skip_434313533463857:33463930:33466975:33467090:33467664:3346794333466975:33467090ENSG00000113407.9ENST00000455217.2,ENST00000502553.1,ENST00000541634.1,ENST00000507716.1,ENST00000414361.2,ENST00000265112.3,ENST00000508361.1

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

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Exon skipping events with PSIs in GTEx for TARS

check button Information of exkip skipping event in GTEx
Exon skip IDchrExons involved in exon skippingSkipped exonENSGENSTs
exon_skip_434288533441151:33441249:33445429:33445510:33448646:3344883633445429:33445510ENSG00000113407.9ENST00000502553.1,ENST00000514259.1,ENST00000265112.3,ENST00000455217.2,ENST00000507716.1,ENST00000414361.2,ENST00000505012.1
exon_skip_434292533445429:33445510:33446712:33446870:33448646:3344883633446712:33446870ENSG00000113407.9ENST00000513066.1
exon_skip_434293533445429:33445510:33446749:33446870:33448646:3344883633446749:33446870ENSG00000113407.9ENST00000509731.1
exon_skip_434294533445429:33445510:33448646:33448837:33453393:3345345133448646:33448837ENSG00000113407.9ENST00000502553.1,ENST00000514259.1,ENST00000265112.3
exon_skip_434295533445429:33445510:33448646:33448837:33453398:3345351733448646:33448837ENSG00000113407.9ENST00000505012.1
exon_skip_434297533445429:33445510:33453393:33453517:33455049:3345511733453393:33453517ENSG00000113407.9ENST00000508361.1,ENST00000541634.1
exon_skip_434305533448646:33448837:33452445:33452544:33453393:3345351733452445:33452544ENSG00000113407.9ENST00000455217.2
exon_skip_434306533448646:33448837:33453393:33453517:33455049:3345511733453393:33453517ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000509731.1
exon_skip_434307533448646:33448837:33453398:33453517:33455049:3345511733453398:33453517ENSG00000113407.9ENST00000505012.1
exon_skip_434308533456138:33456171:33456253:33456332:33457361:3345750833456253:33456332ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000508361.1,ENST00000541634.1,ENST00000455217.2,ENST00000507716.1,ENST00000414361.2,ENST00000509731.1,ENST00000504698.1
exon_skip_434309533462010:33462111:33462203:33462308:33463857:3346393033462203:33462308ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000508361.1,ENST00000541634.1,ENST00000455217.2,ENST00000507716.1,ENST00000414361.2,ENST00000509731.1,ENST00000509410.1
exon_skip_434310533462203:33462308:33463857:33463930:33466975:3346702233463857:33463930ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000508361.1,ENST00000541634.1,ENST00000455217.2,ENST00000507716.1,ENST00000414361.2,ENST00000509731.1
exon_skip_434313533463857:33463930:33466975:33467090:33467664:3346794333466975:33467090ENSG00000113407.9ENST00000502553.1,ENST00000265112.3,ENST00000508361.1,ENST00000541634.1,ENST00000455217.2,ENST00000507716.1,ENST00000414361.2

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 TARS

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
ENST000002651123344864633448837Frame-shift
ENST000005025533344864633448837Frame-shift
ENST000002651123345339333453517Frame-shift
ENST000005025533345339333453517Frame-shift
ENST000002651123345625333456332Frame-shift
ENST000005025533345625333456332Frame-shift
ENST000002651123346385733463930Frame-shift
ENST000005025533346385733463930Frame-shift
ENST000002651123346697533467090Frame-shift
ENST000005025533346697533467090Frame-shift
ENST000002651123344542933445510In-frame
ENST000005025533344542933445510In-frame
ENST000002651123346220333462308In-frame
ENST000005025533346220333462308In-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
ENST000002651123344864633448837Frame-shift
ENST000005025533344864633448837Frame-shift
ENST000002651123345339333453517Frame-shift
ENST000005025533345339333453517Frame-shift
ENST000002651123345625333456332Frame-shift
ENST000005025533345625333456332Frame-shift
ENST000002651123346385733463930Frame-shift
ENST000005025533346385733463930Frame-shift
ENST000002651123346697533467090Frame-shift
ENST000005025533346697533467090Frame-shift
ENST000002651123344542933445510In-frame
ENST000005025533344542933445510In-frame
ENST000002651123346220333462308In-frame
ENST000005025533346220333462308In-frame

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

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
ENST00000265112433172333445429334455103694491946
ENST00000502553255172333445429334455101952751946
ENST000002651124331723334622033346230820422146577611
ENST000005025532551723334622033346230818681972577611

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
ENST00000265112433172333445429334455103694491946
ENST00000502553255172333445429334455101952751946
ENST000002651124331723334622033346230820422146577611
ENST000005025532551723334622033346230818681972577611

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
P2663919461723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P2663919461723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P2663919463939Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P2663919463939Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P2663919462121Natural variantID=VAR_034533;Note=G->D;Dbxref=dbSNP:rs34334786
P2663919462121Natural variantID=VAR_034533;Note=G->D;Dbxref=dbSNP:rs34334786
P26639577611587595Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611587595Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P266395776111723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P266395776111723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P26639577611597607HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611597607HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611581581Sequence conflictNote=D->E;Ontology_term=ECO:0000305;evidence=ECO:0000305
P26639577611581581Sequence conflictNote=D->E;Ontology_term=ECO:0000305;evidence=ECO:0000305
P26639577611608610TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611608610TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT


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
P2663919461723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P2663919461723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P2663919463939Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P2663919463939Modified residueNote=Phosphoserine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:23186163;Dbxref=PMID:23186163
P2663919462121Natural variantID=VAR_034533;Note=G->D;Dbxref=dbSNP:rs34334786
P2663919462121Natural variantID=VAR_034533;Note=G->D;Dbxref=dbSNP:rs34334786
P26639577611587595Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611587595Beta strandOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P266395776111723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P266395776111723ChainID=PRO_0000101119;Note=Threonine--tRNA ligase%2C cytoplasmic
P26639577611597607HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611597607HelixOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611581581Sequence conflictNote=D->E;Ontology_term=ECO:0000305;evidence=ECO:0000305
P26639577611581581Sequence conflictNote=D->E;Ontology_term=ECO:0000305;evidence=ECO:0000305
P26639577611608610TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT
P26639577611608610TurnOntology_term=ECO:0000244;evidence=ECO:0000244|PDB:4HWT


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SNVs in the skipped exons for TARS

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.

check button - Non-synonymous mutations located in the skipped exons in TCGA.
Cancer typeSampleESIDSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
LIHCTCGA-DD-A3A1-01exon_skip_434308
33456254334563323345632033456320Frame_Shift_DelA-p.L275fs
LIHCTCGA-G3-A3CJ-01exon_skip_434309
33462204334623083346229833462298Frame_Shift_DelG-p.G610fs
STADTCGA-F1-A72C-01exon_skip_434295
exon_skip_434294
33448647334488373344878333448784Frame_Shift_Ins-GGp.R92fs
SKCMTCGA-DA-A95X-06exon_skip_434288
33445430334455103344550233445502Nonsense_MutationCTp.R44*
LIHCTCGA-DD-A73E-01exon_skip_434295
exon_skip_434294
33448647334488373344880233448802Nonsense_MutationGAp.W98*
LIHCTCGA-DD-A73E-01exon_skip_434295
exon_skip_434294
33448647334488373344880233448802Nonsense_MutationGAp.W98X
SKCMTCGA-RP-A695-06exon_skip_434309
33462204334623083346224433462244Nonsense_MutationCTp.R591*
SKCMTCGA-D3-A5GU-06exon_skip_434310
33463858334639303346392533463925Nonsense_MutationCTp.Q635*
SKCMTCGA-D3-A5GU-06exon_skip_434310
33463858334639303346392533463925Nonsense_MutationCTp.Q635X
BLCATCGA-DK-A6AW-01exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R663*
READTCGA-F5-6814-01exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R663X
SKCMTCGA-FW-A3R5-06exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R663*
SKCMTCGA-FW-A3R5-06exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R663X
UCSTCGA-ND-A4WC-01exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R663*
UCSTCGA-ND-A4WC-01exon_skip_434313
33466976334670903346705433467054Nonsense_MutationCTp.R696X

check button - Depth of coverage in the three exons composing exon skipping event
Depth of coverage in three exonsMutation description

check button - Non-synonymous mutations located in the skipped exons in CCLE.
SampleSkipped exon startSkipped exon endMutation startMutation endMutation typeReference seqMutation seqAAchange
HEC108_ENDOMETRIUM33448647334488373344875833448759Frame_Shift_DelAA-p.K84fs
HMVII_SKIN33456254334563323345629633456297Frame_Shift_DelAC-p.H268fs
PL21_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE33462204334623083346226433462265Frame_Shift_Ins-GAAAp.-599fs
JHOM1_OVARY33445430334455103344545433445454Missense_MutationAGp.K28E
M07E_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE33448647334488373344865333448653Missense_MutationCGp.P49A
NCIH1734_LUNG33448647334488373344868033448680Missense_MutationCTp.L58F
MDAMB361_BREAST33448647334488373344868333448683Missense_MutationGCp.E59Q
IGROV1_OVARY33448647334488373344873533448735Missense_MutationCTp.A76V
NCIH1339_LUNG33448647334488373344877333448773Missense_MutationGAp.D89N
MZ7MEL_SKIN33453394334535173345346533453465Missense_MutationAGp.E134G
MZ7MEL_SKIN33453399334535173345346533453465Missense_MutationAGp.E134G
OVK18_OVARY33462204334623083346226233462262Missense_MutationGCp.V597L
CW2_LARGE_INTESTINE33466976334670903346700933467009Missense_MutationGTp.A648S
HS936T_SKIN33466976334670903346705533467055Missense_MutationGAp.R663Q
LC1F_LUNG33463858334639303346386733463867Nonsense_MutationGAp.W615*
SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE33453394334535173345339533453395Splice_SiteCAp.Q111K
SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE33453399334535173345339533453395Splice_SiteCAp.Q111K
HCT15_LARGE_INTESTINE33466976334670903346697733466977Splice_SiteTCp.V637A
SNUC5_LARGE_INTESTINE33466976334670903346697733466977Splice_SiteTCp.V637A

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

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 TARS


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


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RelatedDrugs for TARS

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.0 2018-04-02)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for TARS

check button Diseases associated with this gene.
(DisGeNet 4.0)
GeneDisease IDDisease name# pubmedsSource
TARSC0027121Myositis1CTD_human