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    Msh6 mutS homolog 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100360342, updated on 9-Dec-2024

    Summary

    Official Symbol
    Msh6provided by RGD
    Official Full Name
    mutS homolog 6provided by RGD
    Primary source
    RGD:2322311
    See related
    EnsemblRapid:ENSRNOG00000016134 AllianceGenome:RGD:2322311
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including DNA binding activity; chromatin binding activity; and methylated histone binding activity. Predicted to contribute to several functions, including DNA binding activity; MutLalpha complex binding activity; and adenyl ribonucleotide binding activity. Involved in mismatch repair and spermatogenesis. Predicted to be located in several cellular components, including Golgi apparatus; chromatin; and nucleoplasm. Predicted to be part of MutSalpha complex. Predicted to be active in nucleus. Used to study hereditary nonpolyposis colorectal cancer type 5. Human ortholog(s) of this gene implicated in Lynch syndrome; colorectal carcinoma; endometrial cancer; hereditary nonpolyposis colorectal cancer type 5; and mismatch repair cancer syndrome. Orthologous to human MSH6 (mutS homolog 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 452.0), Adrenal (RPKM 99.7) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Msh6 in Genome Data Viewer
    Location:
    6q12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (12316190..12333505, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (6562631..6579995, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (11644565..11662389)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120103457 Neighboring gene uncharacterized LOC120103458 Neighboring gene NADH:ubiquinone oxidoreductase subunit B1, pseudogene 3 Neighboring gene F-box protein 11 Neighboring gene uncharacterized LOC134479271 Neighboring gene potassium two pore domain channel subfamily K member 12 Neighboring gene uncharacterized LOC120103460

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to ADP binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to ATP binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP-dependent DNA damage sensor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP-dependent activity, acting on DNA ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to MutLalpha complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables damaged DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to four-way junction DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to guanine/thymine mispair binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables guanine/thymine mispair binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to magnesium ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mismatched DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    contributes_to mismatched DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mismatched DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to oxidized purine DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    NOT enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to single guanine insertion binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to single thymine insertion binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in DNA repair ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within determination of adult lifespan ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within intrinsic apoptotic signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within intrinsic apoptotic signaling pathway in response to DNA damage ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within isotype switching ISO
    Inferred from Sequence Orthology
    more info
     
    NOT involved_in maintenance of DNA repeat elements ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mismatch repair IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in mismatch repair IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within mismatch repair ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mismatch repair ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of DNA recombination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of DNA recombination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of helicase activity ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to UV ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within somatic hypermutation of immunoglobulin genes ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within somatic recombination of immunoglobulin gene segments ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spermatogenesis IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of MutSalpha complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of MutSalpha complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    DNA mismatch repair protein Msh6
    Names
    rCG61559-like

    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_001398548.1NP_001385477.1  DNA mismatch repair protein Msh6

      Status: INFERRED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A1W2Q695, A6H9C6
      Related
      ENSRNOP00000076177.3, ENSRNOT00000093689.3
      Conserved Domains (2) summary
      cd05837
      Location:87194
      MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...
      COG0249
      Location:4101338
      MutS; DNA mismatch repair ATPase MutS [Replication, recombination and repair]

    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_086024.1 Reference GRCr8

      Range
      12316190..12333505 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)