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    LOC4339293 protein BREAST CANCER SUSCEPTIBILITY 1 homolog [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339293, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4339293
    Gene description
    protein BREAST CANCER SUSCEPTIBILITY 1 homolog
    Locus tag
    OSNPB_050512000
    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 LOC4339293 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (25473412..25479025, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (25357201..25362848, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene serpin-Z1-like Neighboring gene tRNA (mnm(5)s(2)U34)-methyltransferase, chloroplastic-like Neighboring gene uncharacterized LOC112938992 Neighboring gene uncharacterized LOC136351177

    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. 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 ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in double-strand break repair via homologous recombination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of fatty acid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of BRCA1-A complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of BRCA1-BARD1 complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein BREAST CANCER SUSCEPTIBILITY 1 homolog
    Names
    Os05g0512000
    putative ATBARD1/BARD1

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      25473412..25479025 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782755.3 → XP_015638241.1  protein BREAST CANCER SUSCEPTIBILITY 1 homolog isoform X2

      UniProtKB/TrEMBL
      Q6L532
      Conserved Domains (4) summary
      smart00292
      Location:880 → 982
      BRCT; breast cancer carboxy-terminal domain
      cd00027
      Location:782 → 845
      BRCT; Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo ...
      cd00162
      Location:15 → 57
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cd15571
      Location:639 → 717
      ePHD; Extended plant homeodomain (PHD) finger, characterized by Cys2HisCys5HisCys2His

    2. XM_015782756.3 → XP_015638242.1  protein BREAST CANCER SUSCEPTIBILITY 1 homolog isoform X3

      UniProtKB/TrEMBL
      A0A0P0WPD0, B8AZY1, B9FL31, Q0DGU0
      Conserved Domains (6) summary
      COG5141
      Location:572 → 701
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      TIGR00599
      Location:6 → 179
      rad18; DNA repair protein rad18
      cd15571
      Location:642 → 720
      ePHD; Extended plant homeodomain (PHD) finger, characterized by Cys2HisCys5HisCys2His
      cd17734
      Location:779 → 842
      BRCT_Bard1_rpt1; first BRCT domain of BRCA1-associated RING domain protein 1 (Bard1) and similar proteins
      cl00038
      Location:879 → 980
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains
      cl17238
      Location:15 → 54
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    3. XM_015782754.3 → XP_015638240.1  protein BREAST CANCER SUSCEPTIBILITY 1 homolog isoform X1

      UniProtKB/TrEMBL
      Q6L532
      Conserved Domains (6) summary
      COG5141
      Location:572 → 701
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      TIGR00599
      Location:6 → 179
      rad18; DNA repair protein rad18
      cd15571
      Location:642 → 720
      ePHD; Extended plant homeodomain (PHD) finger, characterized by Cys2HisCys5HisCys2His
      cd17734
      Location:785 → 848
      BRCT_Bard1_rpt1; first BRCT domain of BRCA1-associated RING domain protein 1 (Bard1) and similar proteins
      cl00038
      Location:885 → 986
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains
      cl17238
      Location:15 → 54
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein
    Heading Accession and Version

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