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    LOC4337442 DNA mismatch repair protein MSH3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337442, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4337442
    Gene description
    DNA mismatch repair protein MSH3
    Locus tag
    OSNPB_040682900
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 7.6), roots after flowering (RPKM 7.0) and 6 other tissues See more
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    Genomic context

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    See LOC4337442 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (34869979..34877332, complement)

    Chromosome 4 - NC_029259.1Genomic Context describing neighboring genes Neighboring gene putative threonine aspartase Neighboring gene K(+) efflux antiporter 2, chloroplastic Neighboring gene pre-mRNA cleavage factor Im 25 kDa subunit 2 Neighboring gene nuclear transcription factor Y subunit C-2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029259.1 Chromosome 4 Reference IRGSP-1.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP-dependent DNA damage sensor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables mismatched DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mismatch repair IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in mitotic recombination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA mismatch repair protein MSH3
    Names
    Os04g0682900

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

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

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029259.1 Reference IRGSP-1.0 Primary Assembly

      Range
      34869979..34877332 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777981.2 → XP_015633467.1  DNA mismatch repair protein MSH3 isoform X2

      UniProtKB/TrEMBL
      Q7XPW0
      Conserved Domains (6) summary
      smart00533
      Location:432 → 780
      MUTSd; DNA-binding domain of DNA mismatch repair MUTS family
      pfam01624
      Location:100 → 211
      MutS_I; MutS domain I
      pfam05188
      Location:230 → 348
      MutS_II; MutS domain II
      pfam05190
      Location:621 → 707
      MutS_IV; MutS family domain IV
      pfam05192
      Location:415 → 556
      MutS_III; MutS domain III
      cl21455
      Location:769 → 914
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. XM_015777980.2 → XP_015633466.1  DNA mismatch repair protein MSH3 isoform X1

      UniProtKB/TrEMBL
      Q7XPW0
      Conserved Domains (6) summary
      cd03287
      Location:769 → 1002
      ABC_MSH3_euk; ATP-binding cassette domain of eukaryotic MutS3 homolog
      COG0249
      Location:100 → 1012
      MutS; DNA mismatch repair ATPase MutS [Replication, recombination and repair]
      pfam01624
      Location:100 → 211
      MutS_I; MutS domain I
      pfam05188
      Location:230 → 348
      MutS_II; MutS domain II
      pfam05190
      Location:621 → 707
      MutS_IV; MutS family domain IV
      pfam05192
      Location:415 → 556
      MutS_III; MutS domain III

    3. XM_015777982.2 → XP_015633468.1  DNA mismatch repair protein MSH3 isoform X3

      UniProtKB/TrEMBL
      Q7XPW0
      Conserved Domains (6) summary
      smart00533
      Location:432 → 780
      MUTSd; DNA-binding domain of DNA mismatch repair MUTS family
      pfam01624
      Location:100 → 211
      MutS_I; MutS domain I
      pfam05188
      Location:230 → 348
      MutS_II; MutS domain II
      pfam05190
      Location:621 → 707
      MutS_IV; MutS family domain IV
      pfam05192
      Location:415 → 556
      MutS_III; MutS domain III
      cl21455
      Location:769 → 914
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    Nucleotide Protein
    Heading Accession and Version

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