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VARS Gene

protein-coding   GIFtS: 64
GCID: GC06M031745

Valyl-TRNA Synthetase

(Previous name: valyl-tRNA synthetase 2)
(Previous symbol: VARS2)
  See VARS-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Valyl-TRNA Synthetase1 2 3     cytoplasmic1
VARS21 2 3 5     Valine TRNA Ligase 11
G7A2 3 5     valRS2
Valyl-TRNA Synthetase 21 2     Valine TRNA Ligase 1, Cytoplasmic2
Protein G7a2 3     Valine--TRNA Ligase2
EC 6.1.1.93 8     ValRS3
VARS12 5     EC 6.1.18

External Ids:    HGNC: 126511   Entrez Gene: 74072   Ensembl: ENSG000002043947   OMIM: 1921505   UniProtKB: P266403   

Export aliases for VARS gene to outside databases

Previous GC identifers: GC06M031855 GC06M031531


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for VARS Gene:
Aminoacyl-tRNA synthetases catalyze the aminoacylation of tRNA by their cognate amino acid. Because of their
central role in linking amino acids with nucleotide triplets contained in tRNAs, aminoacyl-tRNA synthetases are
thought to be among the first proteins that appeared in evolution. The protein encoded by this gene belongs to
class-I aminoacyl-tRNA synthetase family and is located in the class III region of the major histocompatibility
complex. (provided by RefSeq, Jul 2008)

GeneCards Summary for VARS Gene:
VARS (valyl-tRNA synthetase) is a protein-coding gene. Diseases associated with VARS include scotoma. GO annotations related to this gene include valine-tRNA ligase activity and aminoacyl-tRNA editing activity. An important paralog of this gene is VARS2.

Gene Wiki entry for VARS Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000006.11  NT_007592.16  NT_113891.3  NT_167244.2  NT_167245.2  NT_167247.2  NC_018917.2  NT_167248.2  
NT_167249.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the VARS gene promoter:
         Max1   MyoD   MZF-1   CP2   POU2F1   POU2F1a   STAT3   Zic3   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidVARS promoter sequence
   Search Chromatin IP Primers for VARS

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat VARS


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6p21.3   Ensembl cytogenetic band:  6p21.33   HGNC cytogenetic band: 6p21.3

VARS Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
VARS gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M031745:  view genomic region     (about GC identifiers)

Start:
31,745,295 bp from pter      End:
31,763,730 bp from pter
Size:
18,436 bases      Orientation:
minus strand

6 alternative locations:
Chr6-,NT_167248 3,053,032-3,057,358      Chr6-,NT_167245 3,030,877-3,049,294      Chr6-,NT_167247 3,124,992-3,143,409     
Chr6-,NT_167244 3,060,045-3,078,462      Chr6-,NT_167249 3,076,107-3,093,568      Chr6-,NT_113891.2 3,254,866-3,273,281     

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SYVC_HUMAN, P26640 (See protein sequence)
Recommended Name: Valine--tRNA ligase  
Size: 1264 amino acids; 140476 Da
Subunit: Forms high-molecular-mass aggregates with elongation factor 1
Sequence caution: Sequence=CAA41990.1; Type=Frameshift; Positions=620, 640;
Secondary accessions: B0V1N1 Q5JQ90 Q96E77 Q9UQM2

Explore the universe of human proteins at neXtProt for VARS: NX_P26640

Explore proteomics data for VARS at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys320, Lys418, Lys952, Lys966, Lys1262
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for VARS (P26640) (see all 28)
     KITPAHD  PPPNVTG  GEKKDVS  WWGHRIP 


    See VARS Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_006286.1  
    ENSEMBL proteins: 
     ENSP00000364815   ENSP00000415679   ENSP00000413925   ENSP00000398317  
    Reactome Protein details: P26640

    VARS Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    OriGene MassSpec for VARS
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    Novus Biologicals VARS Proteins
    Novus Biologicals VARS Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for VARS

     
    Search eBioscience for Proteins for VARS 

     
    antibodies-online proteins for VARS (6 products) 

     
    antibodies-online peptides for VARS

    VARS Antibody Products:

    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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    Search for Antibodies for VARS at Abcam
    Cloud-Clone Corp. Antibodies for VARS
    ThermoFisher Antibody for VARS
    antibodies-online antibodies for VARS (24 products) 

    VARS Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for VARS
    Cloud-Clone Corp. CLIAs for VARS
    Search eBioscience for ELISAs for VARS 
    antibodies-online kits for VARS (10 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    aaRS1: Aminoacyl tRNA synthetases / Class I

    Selected InterPro protein domains (see all 10):
     IPR013155 V/L/I-tRNA-synth_anticodon-bd
     IPR002300 aa-tRNA-synth_Ia
     IPR001412 aa-tRNA-synth_I_CS
     IPR002303 Valyl-tRNA_ligase
     IPR004046 GST_C

    Graphical View of Domain Structure for InterPro Entry P26640

    ProtoNet protein and cluster: P26640

    4 Blocks protein domains:
    IPB002300 Aminoacyl-tRNA synthetase
    IPB002303 Valyl-tRNA synthetase signature
    IPB004045 Glutathione S-transferase
    IPB013155 tRNA synthetase


    UniProtKB/Swiss-Prot: SYVC_HUMAN, P26640
    Similarity: Belongs to the class-I aminoacyl-tRNA synthetase family
    Similarity: Contains 1 GST C-terminal domain


    Find genes that share domains with VARS           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SYVC_HUMAN, P26640
    Catalytic activity: ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val)
    Enzyme regulation: Can be regulated by protein kinase C-dependent phosphorylation

         Enzyme Numbers (IUBMB): EC 6.1.1.91 2 EC 6.1.12

         Gene Ontology (GO): Selected molecular function terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding ----
    GO:0002161aminoacyl-tRNA editing activity IEA--
    GO:0004812aminoacyl-tRNA ligase activity ----
    GO:0004832valine-tRNA ligase activity IDA8428657
    GO:0005515protein binding ----
         
    Find genes that share ontologies with VARS           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for VARS:
     Decreased POU5F1-GFP protein e 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for VARS

    miRNA
    Products:
        
    miRTarBase miRNAs that target VARS:
    hsa-mir-93-3p (MIRT038839), hsa-mir-484 (MIRT042341), hsa-mir-324-3p (MIRT042929), hsa-mir-92a-3p (MIRT049193), hsa-mir-615-3p (MIRT040390), hsa-let-7e-5p (MIRT051480), hsa-mir-296-3p (MIRT038431), hsa-mir-331-3p (MIRT043548), hsa-mir-760 (MIRT036708)

    Block miRNA regulation of human, mouse, rat VARS using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate VARS:
    hsa-miR-137
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for VARS
    Predesigned siRNA for gene silencing in human, mouse, rat VARS

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for VARS

    Clone
    Products:
         
    OriGene clones in human, mouse for VARS (see all 6)
    OriGene ORF clones in mouse, rat for VARS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: VARS (NM_006295)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for VARS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VARS

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for VARS
    Browse ESI BIO Cell Lines and PureStem Progenitors for VARS 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for VARS


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol4
    chloroplast2
    mitochondrion2
    nucleus1
    peroxisome1
    plasma membrane1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005739mitochondrion IEA--
    GO:0005829cytosol TAS--

    Find genes that share ontologies with VARS           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for VARS About    
    See pathways by source

    SuperPathContained pathways About
    1tRNA Aminoacylation
    tRNA Aminoacylation0.57
    Aminoacyl-tRNA biosynthesis0.52
    Cytosolic tRNA aminoacylation0.57
    2Gene Expression
    Gene Expression0.40


    Find genes that share SuperPaths with VARS           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for VARS
        Cytosolic tRNA aminoacylation


    1 Kegg Pathway  (Kegg details for VARS):
        Aminoacyl-tRNA biosynthesis

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for VARS
    Interactions:

        Search GeneGlobe Interaction Network for VARS

    STRING Interaction Network Preview (showing 5 interactants - click image to see 21)

    Selected Interacting proteins for VARS (P266401, 2, 3 ENSP000003648154) via UniProtKB, MINT, STRING, and/or I2D (see all 105)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HLA-BP304801, 3EBI-355765,EBI-1054175 I2D: score=1 I2D: score=1 
    EEF1A2Q056391, 3EBI-355765,EBI-354943 I2D: score=2 
    EEF1DP296922, 3MINT-6699624 I2D: score=2 
    EPB41P111711, 3EBI-355765,EBI-1050906 I2D: score=2 
    IKBKGQ9Y6K92, 3MINT-48127 I2D: score=2 
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006414translational elongation ----
    GO:0006418tRNA aminoacylation for protein translation TAS--
    GO:0006438valyl-tRNA aminoacylation IEA--
    GO:0010467gene expression TAS--

    Find genes that share ontologies with VARS           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for VARS (SYVC)

    5 HMDB Compounds for VARS    About this table
    CompoundSynonyms CAS #PubMed Ids
    Adenosine monophosphate5'-AMP (see all 28)61-19-8--
    Adenosine triphosphate5'-(tetrahydrogen triphosphate) Adenosine (see all 24)56-65-5--
    L-Valine(2S)-2-Amino-3-methylbutanoate (see all 27)72-18-4--
    Phosphoric acidacide phosphorique (FRENCH) (see all 20)7664-38-2--
    Pyrophosphate(4-)Diphosphoric acid ion (see all 10)14000-31-8--

    1 DrugBank Compound for VARS    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    L-Valine(2S)-2-Amino-3-methylbutanoic acid (see all 10)72-18-4target--15710393 17095543
    enzymesubstrate15710393 17095543 15710393 17095543

    9 Novoseek inferred chemical compound relationships for VARS gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    aminoacyl-trna 83.8 1 16843487 (1)
    trna 66 20 9988688 (7), 8611551 (2), 18755686 (1), 10792042 (1) (see all 6)
    valine 55.3 2 8611551 (1), 10995737 (1)
    threonine 43.5 5 19398261 (1), 8611551 (1), 10995737 (1), 10792042 (1)
    isoleucine 38.1 1 10995737 (1)
    gdp 35.6 2 9552369 (1), 9988688 (1)
    gtp 33.9 5 9988688 (4), 9552369 (1)
    cysteine 4.32 1 10792042 (1)
    serine 0.406 1 10995737 (1)



    Find genes that share compounds with VARS           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for VARS gene: 
    NM_006295.2  

    Unigene Cluster for VARS:

    Valyl-tRNA synthetase
    Hs.520026  [show with all ESTs]
    Unigene Representative Sequence: NM_006295
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000470953 ENST00000375663(uc021yuy.1 uc003nxe.3 uc011doi.1)
    ENST00000463184 ENST00000428445 ENST00000482996 ENST00000479051 ENST00000459667
    ENST00000461874 ENST00000474643 ENST00000483275 ENST00000461328 ENST00000495010
    ENST00000489979 ENST00000440048 ENST00000444930
    miRNA
    Products:
         
    Block miRNA regulation of human, mouse, rat VARS using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate VARS:
    hsa-miR-137
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for VARS
    Predesigned siRNA for gene silencing in human, mouse, rat VARS
    Clone
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    OriGene clones in human, mouse for VARS (see all 6)
    OriGene ORF clones in mouse, rat for VARS
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: VARS (NM_006295)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for VARS
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat VARS
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for VARS
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat VARS
      QuantiTect SYBR Green Assays in human, mouse, rat VARS
      QuantiFast Probe-based Assays in human, mouse, rat VARS

    Additional mRNA sequence: 

    AK300033.1 AK302762.1 BC012808.2 M98326.1 X59303.1 

    22 DOTS entries:

    DT.449684  DT.100823403  DT.95374587  DT.92455549  DT.92455552  DT.102841790  DT.121376447  DT.40119869 
    DT.102841785  DT.95374585  DT.95374590  DT.121376451  DT.85104293  DT.92056916  DT.95374580  DT.100031397 
    DT.100765773  DT.100835569  DT.92455556  DT.95374581  DT.95374582  DT.95374588 

    Selected AceView cDNA sequences (see all 428):

    BQ931831 AW205398 AW137556 BM831243 BU625602 BE671946 BM506710 CF131664 
    BQ070191 BM729145 AW269365 BC012808 BM922321 BE396932 BQ221438 BF001917 
    BQ068225 AI498884 BQ055019 BQ953463 AI431836 BU845226 BQ061845 AA834600 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    VARS expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGGATGGCAG
    VARS Expression
    About this image


    VARS expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 6) fully expand
     
     Heart (Cardiovascular System)    fully expand to see all 2 entries
             Atrioventricular Canal Cells Atrioventricular Canal
             Outflow Tract
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Cerebral Cortex
     
     Bone (Muscoskeletal System)
             Membranous Facial Bones
     
     Kidney (Urinary System)
             Metanephros
     
     Neural Tube (Nervous System)
             Telencephalon
    VARS Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    VARS Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.520026
        Custom PCR Arrays for VARS
    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for VARS
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat VARS
    QuantiTect SYBR Green Assays in human, mouse, rat VARS
    QuantiFast Probe-based Assays in human, mouse, rat VARS
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for VARS

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for VARS gene from Selected species (see all 25)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Vars1 , 5 valyl-tRNA synthetase1, 5 87.23(n)1
    92.64(a)1
      17 (18.54 cM)5
    223211  NM_011690.31  NP_035820.31 
     350009875 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    70(a)
    62(a)
    1 ↔ many
    1 ↔ many
    GL343570.1(61361-95700)
    AAWZ02036383(4725-11732)
    African clawed frog
    (Xenopus laevis)
    Amphibia CA985866.12   -- 74.04(n)    CA985866.1 
    zebrafish
    (Danio rerio)
    Actinopterygii vars22 valyl-tRNA synthetase 2 76.36(n)   114427  AF506220.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Aats-val1 Valyl-tRNA synthetase 61.25(n)
    60.08(a)
      45783  NM_001274017.1  NP_001260946.1 
    worm
    (Caenorhabditis elegans)
    Secernentea vars-21 vars-2 55.07(n)
    53.78(a)
      173224  NM_060976.4  NP_493377.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes VAS11 VAS1 52.65(n)
    50.49(a)
      852986   NP_011608.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons TWN21 TWN2 54.03(n)
    49.84(a)
      838023  NM_101328.3  NP_172913.1 
    rice
    (Oryza sativa)
    Liliopsida AK121157.12   -- 71.53(n)    AK121157.1 


    ENSEMBL Gene Tree for VARS (if available)
    TreeFam Gene Tree for VARS (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for VARS gene
    VARS22  
    2 SIMAP similar genes for VARS using alignment to 4 protein entries:     SYVC_HUMAN (see all proteins):
    VARS2    EEF1G

    Find genes that share paralogs with VARS           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for VARS (see all 488)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1407568431,2
    --31531200(+) CACGCC/TCCCCT 1 -- int10--------
    rs344426391,2
    C--31661859(+) CTCCT-/GGGCAG 1 -- int11Minor allele frequency- G:0.00NA 2
    rs1497684631,2
    C--31661877(+) CCGGGC/TTTGAC 1 -- int10--------
    rs1130408351,2
    --31662028(+) CAGGGC/AGGGCC 1 -- int11Minor allele frequency- A:0.50CSA 2
    rs94617251,2
    C,F,H--31662041(+) CCTTGG/CCTGCA 1 -- int15Minor allele frequency- C:0.00NS EA NA 418
    rs1485374781,2
    C--31662132(+) CCAGAA/TAGACG 1 -- int10--------
    rs1428488631,2
    --31662137(+) TAGACA/GCACCC 1 -- int10--------
    rs1884901541,2
    --31662138(+) AGACGC/TACCCC 1 -- int10--------
    rs27364261,2
    C,F,A,H--31662239(-) TTGTCA/GTCTGT 1 -- int129Minor allele frequency- G:0.35NS EA NA WA CSA 3055
    rs2004180271,2
    --31662368(+) ACCTTC/TCTGAG 2 R syn10--------

    HapMap Linkage Disequilibrium report for VARS (31745295 - 31763730 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for VARS (see all 11):    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv6583n71CNV Loss21882294
    nsv884434CNV Loss21882294
    dgv6587n71CNV Loss21882294
    nsv884442CNV Loss21882294
    dgv6585n71CNV Loss21882294
    dgv6582n71CNV Loss21882294
    nsv884438CNV Loss21882294
    dgv6586n71CNV Loss21882294
    nsv884441CNV Loss21882294
    dgv6584n71CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing VARS
    DNA2.0 Custom Variant and Variant Library Synthesis for VARS

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 192150    OMIM disorders: --

    1 disease for VARS:    
    About MalaCards
    scotoma

    1 disease from the University of Copenhagen DISEASES database for VARS:
    Scotoma

    Find genes that share disorders with VARS           About GenesLikeMe

    2 Novoseek inferred disease relationships for VARS gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    cleft palate 36.9 1 7993390 (1)
    shock 9.56 2 9461376 (1)

    Genetic Association Database (GAD): VARS
    Human Genome Epidemiology (HuGE) Navigator: VARS (5 documents)

    Export disorders for VARS gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for VARS gene, integrated from 10 sources (see all 75):
    (articles sorted by number of sources associating them with VARS)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Evidence that gene G7a in the human major histocompatibility complex encodes valyl-tRNA synthetase. (PubMed id 1898367)1, 2, 9 Hsieh H.-L. and Campbell R.D. (Biochem. J. 1991)
    2. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    3. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PubMed id 19851445)1, 4 Barcellos L.F....Criswell L.A. (PLoS Genet. 2009)
    4. Toward the full set of human mitochondrial aminoacyl-tRNA synthetases: characterization of AspRS and TyrRS. (PubMed id 15779907)1, 3 Bonnefond L....Sissler M. (Biochemistry 2005)
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    6. Analysis of the gene-dense major histocompatibility complex class III region and its comparison to mouse. (PubMed id 14656967)1, 2 Xie T.... Hood L. (Genome Res. 2003)
    7. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (Nature 2003)
    8. Cloning, sequencing and expression of a cDNA encoding mammalian valyl-tRNA synthetase. (PubMed id 8428657)1, 2 Vilalta A.... Yang D.C.H. (Gene 1993)
    9. Reconstitution in vitro of the valyl-tRNA synthetase-elongation factor (EF) 1 beta gamma delta complex. Essential roles of the NH2-terminal extension of valyl-tRNA synthetase and of the EF-1 delta subunit in complex formation. (PubMed id 8294461)1, 9 Bec G....Waller J.P. (J. Biol. Chem. 1994)
    10. Two human valyl-tRNA synthetase-encoding cDNA sequences deposited in GenBank display extensive differences. (PubMed id 8666263)1, 9 Motorin Y. (Gene 1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 7407 HGNC: 12651 AceView: VARS2 Ensembl:ENSG00000204394 euGenes: HUgn7407
    ECgene: VARS Kegg: 7407 H-InvDB: VARS

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for VARS Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for VARS gene:
    Search GeneIP for patents involving VARS

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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