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    LOC4346476 WD repeat and HMG-box DNA-binding protein 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4346476, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4346476
    Gene description
    WD repeat and HMG-box DNA-binding protein 1
    Locus tag
    OSNPB_090241100
    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 flowers (RPKM 1.6), flower buds (RPKM 1.6) and 6 other tissues See more
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    Genomic context

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    See LOC4346476 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (3114968..3125219)

    Chromosome 9 - NC_029264.1Genomic Context describing neighboring genes Neighboring gene sulfate transporter 4.1, chloroplastic Neighboring gene uncharacterized LOC112936413 Neighboring gene uncharacterized LOC9272276 Neighboring gene small nucleolar RNA R71

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029264.1 Chromosome 9 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 chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in DNA-templated DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in mitotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nuclear replication fork IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    WD repeat and HMG-box DNA-binding protein 1
    Names
    Os09g0241100

    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_029264.1 Reference IRGSP-1.0 Primary Assembly

      Range
      3114968..3125219
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015757073.2 → XP_015612559.1  WD repeat and HMG-box DNA-binding protein 1

      UniProtKB/TrEMBL
      B8BD71
      Conserved Domains (3) summary
      cd00200
      Location:123 → 414
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:182 → 220
      7WD40; WD40 repeat [structural motif]
      pfam12341
      Location:546 → 828
      Mcl1_mid; Minichromosome loss protein, Mcl1, middle region
    Nucleotide Protein
    Heading Accession and Version

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