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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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    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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