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VARS1 valyl-tRNA synthetase 1 [ Homo sapiens (human) ]

Gene ID: 7407, updated on 24-Nov-2020

Summary

Official Symbol
VARS1provided by HGNC
Official Full Name
valyl-tRNA synthetase 1provided by HGNC
Primary source
HGNC:HGNC:12651
See related
Ensembl:ENSG00000204394 MIM:192150
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
G7A; VARS; VARS2; NDMSCA
Summary
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]
Expression
Broad expression in testis (RPKM 30.0), appendix (RPKM 11.3) and 25 other tissues See more
Orthologs

Genomic context

See VARS1 in Genome Data Viewer
Location:
6p21.33
Exon count:
30
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (31777518..31795928, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31745295..31763712, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene MSH5-SAPCD1 readthrough (NMD candidate) Neighboring gene mutS homolog 5 Neighboring gene RNA, U6 small nuclear 850, pseudogene Neighboring gene SAPCD1 antisense RNA 1 Neighboring gene suppressor APC domain containing 1 Neighboring gene von Willebrand factor A domain containing 7 Neighboring gene LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated Neighboring gene origin of replication in promoter of HSPA1A Neighboring gene heat shock protein family A (Hsp70) member 1 like

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
aminoacyl-tRNA editing activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
valine-tRNA ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
valine-tRNA ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
valine-tRNA ligase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
aminoacyl-tRNA metabolism involved in translational fidelity IEA
Inferred from Electronic Annotation
more info
 
tRNA aminoacylation for protein translation TAS
Traceable Author Statement
more info
 
valyl-tRNA aminoacylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
valine--tRNA ligase
Names
protein G7a
valRS
valine tRNA ligase 1, cytoplasmic
valyl-tRNA synthetase 2
NP_006286.1
XP_005249419.1
XP_016866735.1
XP_024302305.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_028229.1 RefSeqGene

    Range
    5184..23418
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_006295.3NP_006286.1  valine--tRNA ligase

    See identical proteins and their annotated locations for NP_006286.1

    Status: REVIEWED

    Source sequence(s)
    BC012808, CX167000, CX781162, M98326
    Consensus CDS
    CCDS34412.1
    UniProtKB/Swiss-Prot
    P26640
    UniProtKB/TrEMBL
    A0A024RCN6
    Related
    ENSP00000364815.3, ENST00000375663.8
    Conserved Domains (2) summary
    cd10294
    Location:92213
    GST_C_ValRS_N; Glutathione S-transferase C-terminal-like, alpha helical domain of vertebrate Valyl-tRNA synthetase
    cl26128
    Location:2821264
    tRNA-synt_1g; tRNA synthetases class I (M)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    31777518..31795928 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005249362.2XP_005249419.1  valine--tRNA ligase isoform X1

    See identical proteins and their annotated locations for XP_005249419.1

    Conserved Domains (7) summary
    cd07962
    Location:9391076
    Anticodon_Ia_Val; Anticodon-binding domain of valyl tRNA synthetases
    cd00817
    Location:336939
    ValRS_core; catalytic core domain of valyl-tRNA synthetases
    cd10294
    Location:92213
    GST_C_ValRS_N; Glutathione S-transferase C-terminal-like, alpha helical domain of vertebrate Valyl-tRNA synthetase
    COG0625
    Location:56203
    GstA; Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
    PTZ00419
    Location:2831265
    PTZ00419; valyl-tRNA synthetase-like protein; Provisional
    pfam10458
    Location:11971259
    Val_tRNA-synt_C; Valyl tRNA synthetase tRNA binding arm
    pfam13603
    Location:514610
    tRNA-synt_1_2; Leucyl-tRNA synthetase, Domain 2
  2. XM_024446537.1XP_024302305.1  valine--tRNA ligase isoform X2

    Conserved Domains (1) summary
    cl26128
    Location:1682
    tRNA-synt_1g; tRNA synthetases class I (M)
  3. XM_017011246.1XP_016866735.1  valine--tRNA ligase isoform X2

    Conserved Domains (1) summary
    cl26128
    Location:1682
    tRNA-synt_1g; tRNA synthetases class I (M)

RNA

  1. XR_926304.2 RNA Sequence

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NT_167244.2 Reference GRCh38.p13 ALT_REF_LOCI_1

    Range
    3110129..3128363 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p13 ALT_REF_LOCI_2

    Range
    3254760..3272992 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p13 ALT_REF_LOCI_3

    Range
    3025292..3043526 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p13 ALT_REF_LOCI_5

    Range
    3119407..3137641 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p13 ALT_REF_LOCI_6

    Range
    3047436..3051579 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p13 ALT_REF_LOCI_7

    Range
    3076809..3094270 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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