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Aliases for VARS Gene

Aliases for VARS Gene

  • Valyl-TRNA Synthetase 2 3 4
  • Valyl-TRNA Synthetase 2 2 3
  • Protein G7a 3 4
  • EC 6.1.1.9 4 63
  • ValRS 3 4
  • VARS2 3 4
  • G7A 3 4
  • Valine TRNA Ligase 1, Cytoplasmic 3
  • Valine TRNA Ligase 1 2
  • Cytoplasmic 2
  • EC 6.1.1 63
  • VARS1 3

External Ids for VARS Gene

Previous HGNC Symbols for VARS Gene

  • VARS2

Previous GeneCards Identifiers for VARS Gene

  • GC06M031855
  • GC06M031745
  • GC06M031531
  • GC06M031780

Summaries for VARS Gene

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. Among its related pathways are Gene Expression and tRNA Aminoacylation. GO annotations related to this gene include nucleotide binding and aminoacyl-tRNA editing activity. An important paralog of this gene is VARS2.

Gene Wiki entry for VARS Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VARS Gene

Genomics for VARS Gene

Regulatory Elements for VARS Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for VARS Gene

Chromosome:
6
Start:
31,777,518 bp from pter
End:
31,795,953 bp from pter
Size:
18,436 bases
Orientation:
Minus strand

Genomic View for VARS Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for VARS Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for VARS Gene

  • Protein details for VARS Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P26640-SYVC_HUMAN
    Recommended name:
    Valine--tRNA ligase
    Protein Accession:
    P26640
    Secondary Accessions:
    • B0V1N1
    • B4DZ61
    • Q5JQ90
    • Q96E77
    • Q9UQM2

    Protein attributes for VARS Gene

    Size:
    1264 amino acids
    Molecular mass:
    140476 Da
    Quaternary structure:
    • Forms high-molecular-mass aggregates with elongation factor 1
    SequenceCaution:
    • Sequence=CAA41990.1; Type=Frameshift; Positions=620, 640; Evidence={ECO:0000305};

    Alternative splice isoforms for VARS Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VARS Gene

Proteomics data for VARS Gene at MOPED

Post-translational modifications for VARS Gene

  • Ubiquitination at Lys 320, Lys 418, Lys 952, Lys 966, and Lys 1262
  • Modification sites at PhosphoSitePlus

Other Protein References for VARS Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for VARS Gene

Gene Families for VARS Gene

Graphical View of Domain Structure for InterPro Entry

P26640

UniProtKB/Swiss-Prot:

SYVC_HUMAN :
  • Contains 1 GST C-terminal domain.
  • Belongs to the class-I aminoacyl-tRNA synthetase family.
Domain:
  • Contains 1 GST C-terminal domain.
Family:
  • Belongs to the class-I aminoacyl-tRNA synthetase family.
genes like me logo Genes that share domains with VARS: view

Function for VARS Gene

Molecular function for VARS Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val)
UniProtKB/Swiss-Prot EnzymeRegulation:
Can be regulated by protein kinase C-dependent phosphorylation

Enzyme Numbers (IUBMB) for VARS Gene

Gene Ontology (GO) - Molecular Function for VARS Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding --
GO:0002161 aminoacyl-tRNA editing activity IEA --
GO:0004812 aminoacyl-tRNA ligase activity --
GO:0004832 valine-tRNA ligase activity IDA 8428657
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with VARS: view
genes like me logo Genes that share phenotypes with VARS: view

Animal Model Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VARS

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targets and HOMER Transcription for VARS Gene

Localization for VARS Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VARS Gene COMPARTMENTS Subcellular localization image for VARS gene
Compartment Confidence
cytosol 4
mitochondrion 2

Gene Ontology (GO) - Cellular Components for VARS Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with VARS: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for VARS Gene

Pathways & Interactions for VARS Gene

genes like me logo Genes that share pathways with VARS: view

Pathways by source for VARS Gene

Gene Ontology (GO) - Biological Process for VARS Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006418 tRNA aminoacylation for protein translation TAS --
GO:0006438 valyl-tRNA aminoacylation IBA --
GO:0006450 regulation of translational fidelity IEA --
GO:0010467 gene expression TAS --
genes like me logo Genes that share ontologies with VARS: view

No data available for SIGNOR curated interactions for VARS Gene

Drugs & Compounds for VARS Gene

(9) Drugs for VARS Gene - From: HMDB, NovoSeek, and DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
L-Valine Approved Nutra Target, Enzyme, substrate 0
Adenosine monophosphate Approved Nutra 0
Adenosine triphosphate Approved Nutra 0
Diphosphate Experimental Pharma 0
cysteine Nutra 143

(5) Additional Compounds for VARS Gene - From: NovoSeek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
7664-38-2
Aminoacyl-tRNA
gdp
gtp
Partial agonist, Agonist
tRNA
genes like me logo Genes that share compounds with VARS: view

Transcripts for VARS Gene

Unigene Clusters for VARS Gene

Valyl-tRNA synthetase:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VARS

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VARS Gene

No ASD Table

Relevant External Links for VARS Gene

GeneLoc Exon Structure for
VARS
ECgene alternative splicing isoforms for
VARS

Expression for VARS Gene

mRNA expression in normal human tissues for VARS Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for VARS Gene

This gene is overexpressed in Lymph node (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for VARS Gene



SOURCE GeneReport for Unigene cluster for VARS Gene Hs.520026

genes like me logo Genes that share expression patterns with VARS: view

Protein tissue co-expression partners for VARS Gene

- Elite partner

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for VARS Gene

Orthologs for VARS Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VARS Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia VARS 35
  • 90.33 (n)
  • 95.25 (a)
VARS 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia VARS 35
  • 89.77 (n)
  • 94.38 (a)
VARS 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vars 35
  • 87.23 (n)
  • 92.64 (a)
Vars 16
Vars 36
  • 93 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia VARS 35
  • 99.53 (n)
  • 99.53 (a)
VARS 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Vars 35
  • 87.55 (n)
  • 93.43 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 86 (a)
OneToMany
-- 36
  • 63 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia VARS 36
  • 79 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 62 (a)
OneToMany
-- 36
  • 70 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.11856 35
vars 35
  • 63.38 (n)
  • 66.86 (a)
zebrafish
(Danio rerio)
Actinopterygii vars 35
  • 64.74 (n)
  • 66.83 (a)
vars2 35
vars 36
  • 66 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010420 35
  • 59.37 (n)
  • 60.42 (a)
fruit fly
(Drosophila melanogaster)
Insecta Aats-val 35
  • 61.25 (n)
  • 60.08 (a)
Aats-val 36
  • 59 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea vars-2 35
  • 55.07 (n)
  • 53.78 (a)
vars-2 36
  • 53 (a)
ManyToMany
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AAR034W 35
  • 55.03 (n)
  • 50.83 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0D14971g 35
  • 53.2 (n)
  • 51.86 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes VAS1 35
  • 52.65 (n)
  • 50.49 (a)
VAS1 36
  • 47 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons TWN2 35
  • 54.03 (n)
  • 49.84 (a)
soybean
(Glycine max)
eudicotyledons Gma.16767 35
barley
(Hordeum vulgare)
Liliopsida Hv.3064 35
rice
(Oryza sativa)
Liliopsida Os03g0694900 35
  • 54.02 (n)
  • 52.25 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.2835 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3304 35
bread mold
(Neurospora crassa)
Ascomycetes NCU01965 35
  • 56.16 (n)
  • 48.61 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes vrs1 35
  • 53.62 (n)
  • 54.38 (a)
Species with no ortholog for VARS:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for VARS Gene

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

Paralogs for VARS Gene

Paralogs for VARS Gene

(2) SIMAP similar genes for VARS Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with VARS: view

Variants for VARS Gene

Sequence variations from dbSNP and Humsavar for VARS Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type MAF
rs140929208 untested, untested 31,780,475(+) TCCCA(-/A)GGCCA frameshift-variant, reference, downstream-variant-500B
VAR_052647 -
VAR_052648 -
VAR_052649 -
VAR_052650 -

Structural Variations from Database of Genomic Variants (DGV) for VARS Gene

Variant ID Type Subtype PubMed ID
dgv6582n71 CNV Loss 21882294
dgv6583n71 CNV Loss 21882294
nsv884431 CNV Gain 21882294
dgv6584n71 CNV Loss 21882294
nsv884434 CNV Loss 21882294
dgv6585n71 CNV Loss 21882294
nsv884438 CNV Loss 21882294
nsv884441 CNV Loss 21882294
nsv884442 CNV Loss 21882294
dgv6586n71 CNV Loss 21882294
dgv6587n71 CNV Loss 21882294

Variation tolerance for VARS Gene

Residual Variation Intolerance Score: 27.88% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 16.30; 97.66% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VARS Gene

HapMap Linkage Disequilibrium report
VARS

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VARS Gene

Disorders for VARS Gene

Relevant External Links for VARS

Genetic Association Database (GAD)
VARS
Human Genome Epidemiology (HuGE) Navigator
VARS
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VARS
genes like me logo Genes that share disorders with VARS: view

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VARS Gene

Publications for VARS Gene

  1. Molecular dynamics simulation study of valyl-tRNA synthetase with its pre- and post-transfer editing substrates. (PMID: 19398261) Bharatham N. … Woo Lee K. (Biophys. Chem. 2009) 23 67
  2. Promoting the formation of an active synthetase/tRNA complex by a nonspecific tRNA-binding domain. (PMID: 18755686) Chang C.P. … Wang C.C. (J. Biol. Chem. 2008) 23 67
  3. A present-day aminoacyl-tRNA synthetase with ancestral editing properties. (PMID: 17095543) Zhu B. … Wang E.D. (RNA 2007) 25 26
  4. Distinct kinetic mechanisms of the two classes of Aminoacyl-tRNA synthetases. (PMID: 16843487) Zhang C.M. … Hou Y.M. (J. Mol. Biol. 2006) 23 67
  5. Toward the full set of human mitochondrial aminoacyl-tRNA synthetases: characterization of AspRS and TyrRS. (PMID: 15779907) Bonnefond L. … Sissler M. (Biochemistry 2005) 2 67

Products for VARS Gene

Sources for VARS Gene

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