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    LOC4334058 DNA repair protein XRCC4 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334058, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4334058
    Gene description
    DNA repair protein XRCC4
    Locus tag
    OSNPB_030740800
    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
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    Genomic context

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    See LOC4334058 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (31278207..31280949)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (30395644..30398507)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene deoxyhypusine synthase Neighboring gene uncharacterized LOC4334057 Neighboring gene transcription factor BHLH148-like Neighboring gene uncharacterized LOC136355714 Neighboring gene acyl-[acyl-carrier-protein] desaturase 7, chloroplastic-like Neighboring gene protein WRKY1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    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
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA ligation involved in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in double-strand break repair via nonhomologous end joining IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in response to X-ray IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of DNA ligase IV complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of DNA-dependent protein kinase-DNA ligase 4 complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA repair protein XRCC4
    Names
    Os03g0740800

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      31278207..31280949
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015775746.3 → XP_015631232.1  DNA repair protein XRCC4

      UniProtKB/TrEMBL
      A2XLU8, A3AMJ1, Q75KV7, Q7Y1H0
      Conserved Domains (1) summary
      pfam06632
      Location:41 → 263
      XRCC4; DNA double-strand break repair and V(D)J recombination protein XRCC4
    Nucleotide Protein
    Heading Accession and Version

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