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

    Gene ID: 7407, updated on 4-Feb-2024

    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; AllianceGenome:HGNC:12651
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See VARS1 in Genome Data Viewer
    Location:
    6p21.33
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (31777518..31795752, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (31630565..31648800, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31745295..31763529, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene MSH5-SAPCD1 readthrough (NMD candidate) Neighboring gene SAPCD1 antisense RNA 1 Neighboring gene suppressor APC domain containing 1 Neighboring gene Sharpr-MPRA regulatory regions 3149 and 4553 Neighboring gene von Willebrand factor A domain containing 7 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:31759127-31759287 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:31759783-31760982 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:31763127-31763981 Neighboring gene LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:31782423-31783252 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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables aminoacyl-tRNA editing activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables valine-tRNA ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables valine-tRNA ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables valine-tRNA ligase activity TAS
    Traceable Author Statement
    more info
     
    Process Evidence Code Pubs
    involved_in aminoacyl-tRNA metabolism involved in translational fidelity IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in tRNA aminoacylation for protein translation TAS
    Traceable Author Statement
    more info
     
    involved_in valyl-tRNA aminoacylation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in 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_047275252.1
    XP_047275253.1
    XP_047275254.1
    XP_054184482.1
    XP_054184483.1
    XP_054185836.1
    XP_054185837.1
    XP_054186320.1
    XP_054186321.1
    XP_054186836.1
    XP_054186837.1
    XP_054212286.1
    XP_054212287.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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
      B0V1N1, B4DZ61, P26640, Q5JQ90, Q96E77, Q9UQM2
      UniProtKB/TrEMBL
      A0A024RCN6, A0A1U9X9A0, A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
      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: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      31777518..31795752 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005249362.3XP_005249419.1  valine--tRNA ligase isoform X1

      See identical proteins and their annotated locations for XP_005249419.1

      UniProtKB/TrEMBL
      A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
      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_047419297.1XP_047275253.1  valine--tRNA ligase isoform X3

      UniProtKB/Swiss-Prot
      B0V1N1, B4DZ61, P26640, Q5JQ90, Q96E77, Q9UQM2
      UniProtKB/TrEMBL
      A0A024RCN6, A0A1U9X9A0, A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
    3. XM_047419296.1XP_047275252.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
    4. XM_047419298.1XP_047275254.1  valine--tRNA ligase isoform X2

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_167244.2 Reference GRCh38.p14 ALT_REF_LOCI_1

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

    mRNA and Protein(s)

    1. XM_054328507.1XP_054184482.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9D5
    2. XM_054328508.1XP_054184483.1  valine--tRNA ligase isoform X2

    Reference GRCh38.p14 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

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

    mRNA and Protein(s)

    1. XM_054329861.1XP_054185836.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
    2. XM_054329862.1XP_054185837.1  valine--tRNA ligase isoform X2

    Reference GRCh38.p14 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3

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

    mRNA and Protein(s)

    1. XM_054330345.1XP_054186320.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9A1, A0A1U9X9A3, A0A1U9X9C1, A0A1U9X9C4, A0A1U9X9C8, A0A1U9X9D5
    2. XM_054330346.1XP_054186321.1  valine--tRNA ligase isoform X2

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

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

    mRNA and Protein(s)

    1. XM_054330861.1XP_054186836.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9D5
    2. XM_054330862.1XP_054186837.1  valine--tRNA ligase isoform X2

    Reference GRCh38.p14 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6

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

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

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

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      31630565..31648800 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054356311.1XP_054212286.1  valine--tRNA ligase isoform X1

      UniProtKB/TrEMBL
      A0A1U9X9D5
    2. XM_054356312.1XP_054212287.1  valine--tRNA ligase isoform X2