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

    Gene ID: 4339293, updated on 25-Jan-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
    Expression
    Broad expression in flower buds (RPKM 2.2), flowers (RPKM 1.1) and 4 other tissues See more
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (25357201..25362848, complement)

    Chromosome 5 - NC_029260.1Genomic Context describing neighboring genes Neighboring gene serpin-Z1-like Neighboring gene putative rRNA methylase YtqB Neighboring gene uncharacterized LOC112938992 Neighboring gene uncharacterized LOC107281048

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029260.1 Chromosome 5 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 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

    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_029260.1 Reference IRGSP-1.0 Primary Assembly

      Range
      25357201..25362848 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782755.2 → 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_015782756.2 → 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_015782754.2 → 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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