Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

VARS (valyl-tRNA synthetase)

Identity

Alias_namesVARS2
valyl-tRNA synthetase 2
Other aliasG7A
VARS1
HGNC (Hugo) VARS
LocusID (NCBI) 7407
Atlas_Id 75584
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 31777520 and ends at 31795935 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
PARG (10q11.23) / VARS (6p21.33)TAP2 (6p21.32) / VARS (6p21.33)VARS (6p21.33) / EHMT2 (6p21.33)
VARS (6p21.33) / TOP1MT (8q24.3)VARS (6p21.33) / VMP1 (17q23.1)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  t(6;6)(p21;p21) TAP2/VARS
t(6;17)(p21;q23) VARS/VMP1


External links

Nomenclature
HGNC (Hugo)VARS   12651
Cards
Entrez_Gene (NCBI)VARS  7407  valyl-tRNA synthetase
AliasesG7A; VARS1; VARS2
GeneCards (Weizmann)VARS
Ensembl hg19 (Hinxton)ENSG00000204394 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204394 [Gene_View]  chr6:31777520-31795935 [Contig_View]  VARS [Vega]
ICGC DataPortalENSG00000204394
TCGA cBioPortalVARS
AceView (NCBI)VARS
Genatlas (Paris)VARS
WikiGenes7407
SOURCE (Princeton)VARS
Genetics Home Reference (NIH)VARS
Genomic and cartography
GoldenPath hg38 (UCSC)VARS  -     chr6:31777520-31795935 -  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VARS  -     6p21.33   [Description]    (hg19-Feb_2009)
EnsemblVARS - 6p21.33 [CytoView hg19]  VARS - 6p21.33 [CytoView hg38]
Mapping of homologs : NCBIVARS [Mapview hg19]  VARS [Mapview hg38]
OMIM192150   
Gene and transcription
Genbank (Entrez)AK300033 AK302762 BC012808 CX167000 CX781162
RefSeq transcript (Entrez)NM_006295
RefSeq genomic (Entrez)NC_000006 NC_018917 NG_028229 NT_113891 NT_167244 NT_167245 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)VARS
Cluster EST : UnigeneHs.520026 [ NCBI ]
CGAP (NCI)Hs.520026
Alternative Splicing GalleryENSG00000204394
Gene ExpressionVARS [ NCBI-GEO ]   VARS [ EBI - ARRAY_EXPRESS ]   VARS [ SEEK ]   VARS [ MEM ]
Gene Expression Viewer (FireBrowse)VARS [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7407
GTEX Portal (Tissue expression)VARS
Human Protein AtlasENSG00000204394-VARS [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP26640   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP26640  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP26640
Splice isoforms : SwissVarP26640
Catalytic activity : Enzyme6.1.1.9 [ Enzyme-Expasy ]   6.1.1.96.1.1.9 [ IntEnz-EBI ]   6.1.1.9 [ BRENDA ]   6.1.1.9 [ KEGG ]   
PhosPhoSitePlusP26640
Domaine pattern : Prosite (Expaxy)AA_TRNA_LIGASE_I (PS00178)    GST_CTER (PS50405)   
Domains : Interpro (EBI)aa-tRNA-synth_I_CS    aa-tRNA-synth_Ia    Anticodon_Ia_Val    Glutathione-S-Trfase_C-like    GST_C    M/V/L/I-tRNA-synth_anticd-bd    Rossmann-like_a/b/a_fold    tRNAsynth_Ia_anticodon-bd    Val/Leu/Ile-tRNA-synth_edit    Valyl-tRNA_ligase   
Domain families : Pfam (Sanger)Anticodon_1 (PF08264)    GST_C (PF00043)    tRNA-synt_1 (PF00133)   
Domain families : Pfam (NCBI)pfam08264    pfam00043    pfam00133   
Conserved Domain (NCBI)VARS
DMDM Disease mutations7407
Blocks (Seattle)VARS
SuperfamilyP26640
Human Protein Atlas [tissue]ENSG00000204394-VARS [tissue]
Peptide AtlasP26640
HPRD10362
IPIIPI00000873   IPI00908612   IPI00893487   IPI00646425   IPI00793323   IPI00788898   IPI00893918   IPI00893211   IPI00893333   
Protein Interaction databases
DIP (DOE-UCLA)P26640
IntAct (EBI)P26640
FunCoupENSG00000204394
BioGRIDVARS
STRING (EMBL)VARS
ZODIACVARS
Ontologies - Pathways
QuickGOP26640
Ontology : AmiGOaminoacyl-tRNA editing activity  valine-tRNA ligase activity  valine-tRNA ligase activity  protein binding  ATP binding  mitochondrion  cytosol  cytosol  tRNA aminoacylation for protein translation  valyl-tRNA aminoacylation  regulation of translational fidelity  
Ontology : EGO-EBIaminoacyl-tRNA editing activity  valine-tRNA ligase activity  valine-tRNA ligase activity  protein binding  ATP binding  mitochondrion  cytosol  cytosol  tRNA aminoacylation for protein translation  valyl-tRNA aminoacylation  regulation of translational fidelity  
Pathways : KEGGValine, leucine and isoleucine biosynthesis    Aminoacyl-tRNA biosynthesis   
NDEx NetworkVARS
Atlas of Cancer Signalling NetworkVARS
Wikipedia pathwaysVARS
Orthology - Evolution
OrthoDB7407
GeneTree (enSembl)ENSG00000204394
Phylogenetic Trees/Animal Genes : TreeFamVARS
HOVERGENP26640
HOGENOMP26640
Homologs : HomoloGeneVARS
Homology/Alignments : Family Browser (UCSC)VARS
Gene fusions - Rearrangements
Fusion : QuiverVARS
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVARS [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VARS
dbVarVARS
ClinVarVARS
1000_GenomesVARS 
Exome Variant ServerVARS
ExAC (Exome Aggregation Consortium)ENSG00000204394
GNOMAD BrowserENSG00000204394
Genetic variants : HAPMAP7407
Genomic Variants (DGV)VARS [DGVbeta]
DECIPHERVARS [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVARS 
Mutations
ICGC Data PortalVARS 
TCGA Data PortalVARS 
Broad Tumor PortalVARS
OASIS PortalVARS [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVARS  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVARS
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch VARS
DgiDB (Drug Gene Interaction Database)VARS
DoCM (Curated mutations)VARS (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VARS (select a term)
intoGenVARS
Cancer3DVARS(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM192150   
Orphanet
DisGeNETVARS
MedgenVARS
Genetic Testing Registry VARS
NextProtP26640 [Medical]
TSGene7407
GENETestsVARS
Target ValidationVARS
Huge Navigator VARS [HugePedia]
snp3D : Map Gene to Disease7407
BioCentury BCIQVARS
ClinGenVARS
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7407
Chemical/Pharm GKB GenePA37275
Clinical trialVARS
Miscellaneous
canSAR (ICR)VARS (select the gene name)
Probes
Litterature
PubMed1 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVARS
EVEXVARS
GoPubMedVARS
iHOPVARS
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri Feb 23 18:57:54 CET 2018

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.