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Vars1 valyl-tRNA synthetase 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 25009, updated on 5-Mar-2024

Summary

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Official Symbol
Vars1provided by RGD
Official Full Name
valyl-tRNA synthetase 1provided by RGD
Primary source
RGD:3950
See related
Ensembl:ENSRNOG00000000867 AllianceGenome:RGD:3950
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
G7a; Bat6; Vars; Vars2; TrsVal
Summary
Enables valine-tRNA ligase activity. Predicted to be involved in valyl-tRNA aminoacylation. Predicted to be active in cytosol. Orthologous to human VARS1 (valyl-tRNA synthetase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 234.5), Muscle (RPKM 158.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Vars1 in Genome Data Viewer
Location:
20p12
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (3810427..3825193, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (3805774..3820468, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (4993539..5008259)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene mutS homolog 5 Neighboring gene suppressor APC domain containing 1 Neighboring gene von Willebrand factor A domain containing 7 Neighboring gene uncharacterized LOC108349032 Neighboring gene ribosomal protein L13, pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Cloning, sequencing and expression of a cDNA encoding mammalian valyl-tRNA synthetase. Vilalta A, et al. Gene, 1993 Jan 30. PMID 8428657
  2. Structural Analysis of Hippocampal Kinase Signal Transduction. McClatchy DB, et al. ACS Chem Neurosci, 2018 Dec 19. PMID 30053369, Free PMC Article
  3. The genomic sequence and comparative analysis of the rat major histocompatibility complex. Hurt P, et al. Genome Res, 2004 Apr. PMID 15060004, Free PMC Article
  4. Interactome analysis of AMP-activated protein kinase (AMPK)-α1 and -β1 in INS-1 pancreatic beta-cells by affinity purification-mass spectrometry. Moon S, et al. Sci Rep, 2014 Mar 14. PMID 24625528, Free PMC Article
  5. Identification and characterization of the BRI2 interactome in the brain. Martins F, et al. Sci Rep, 2018 Feb 23. PMID 29476059, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

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 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 IEA
Inferred from Electronic Annotation
more info
  
enables valine-tRNA ligase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in aminoacyl-tRNA metabolism involved in translational fidelity IEA
Inferred from Electronic Annotation
more info
  
involved_in valyl-tRNA aminoacylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in valyl-tRNA aminoacylation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
valine--tRNA ligase
Names
valRS
valyl-tRNA synthetase 2
NP_445744.1
XP_006256109.1
XP_038954359.1

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_053292.1 → NP_445744.1  valine--tRNA ligase

    See identical proteins and their annotated locations for NP_445744.1

    Status: VALIDATED

    Source sequence(s)
    BX883045
    UniProtKB/Swiss-Prot
    Q04462, Q6MG65
    UniProtKB/TrEMBL
    A0A8L2UQS2, A6KTQ1
    Related
    ENSRNOP00000001160.4, ENSRNOT00000001160.7
    Conserved Domains (7) summary
    cd07962
    Location:938 → 1075
    Anticodon_Ia_Val; Anticodon-binding domain of valyl tRNA synthetases
    cd00817
    Location:335 → 938
    ValRS_core; catalytic core domain of valyl-tRNA synthetases
    COG0625
    Location:56 → 203
    GstA; Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
    PTZ00419
    Location:282 → 1264
    PTZ00419; valyl-tRNA synthetase-like protein; Provisional
    pfam10458
    Location:1196 → 1258
    Val_tRNA-synt_C; Valyl tRNA synthetase tRNA binding arm
    pfam13603
    Location:513 → 640
    tRNA-synt_1_2; Leucyl-tRNA synthetase, Domain 2
    cl02776
    Location:92 → 213
    GST_C_family; C-terminal, alpha helical domain of the Glutathione S-transferase family

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086038.1 Reference GRCr8

    Range
    3810427..3825193 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006256047.5 → XP_006256109.1  valine--tRNA ligase isoform X1

    See identical proteins and their annotated locations for XP_006256109.1

    UniProtKB/Swiss-Prot
    Q04462, Q6MG65
    UniProtKB/TrEMBL
    A0A8L2UQS2, A6KTQ1
    Conserved Domains (7) summary
    cd07962
    Location:938 → 1075
    Anticodon_Ia_Val; Anticodon-binding domain of valyl tRNA synthetases
    cd00817
    Location:335 → 938
    ValRS_core; catalytic core domain of valyl-tRNA synthetases
    COG0625
    Location:56 → 203
    GstA; Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
    PTZ00419
    Location:282 → 1264
    PTZ00419; valyl-tRNA synthetase-like protein; Provisional
    pfam10458
    Location:1196 → 1258
    Val_tRNA-synt_C; Valyl tRNA synthetase tRNA binding arm
    pfam13603
    Location:513 → 640
    tRNA-synt_1_2; Leucyl-tRNA synthetase, Domain 2
    cl02776
    Location:92 → 213
    GST_C_family; C-terminal, alpha helical domain of the Glutathione S-transferase family

  2. XM_039098431.2 → XP_038954359.1  valine--tRNA ligase isoform X2

    UniProtKB/TrEMBL
    A6KTQ3
    Conserved Domains (1) summary
    PTZ00419
    Location:18 → 923
    PTZ00419; valyl-tRNA synthetase-like protein; Provisional
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q04462.2 GenPept UniProtKB/Swiss-Prot:Q04462

Gene LinkOut

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