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    LOC4336535 B-box zinc finger protein 20 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4336535, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4336535
    Gene description
    B-box zinc finger protein 20
    Locus tag
    OSNPB_040540200
    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 roots before flowering (RPKM 6.0), flowers (RPKM 3.4) and 4 other tissues See more
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    Genomic context

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    See LOC4336535 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (27531522..27533700)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (27027053..27029497)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107278331 Neighboring gene transfer RNA proline (anticodon CGG) Neighboring gene SH3 domain-containing protein 2 Neighboring gene COBRA-like protein 7 Neighboring gene uncharacterized LOC112938583 Neighboring gene uncharacterized LOC9269566

    Genomic regions, transcripts, and products

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    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. GRASSIUS: a platform for comparative regulatory genomics across the grasses. Yilmaz A, et al. Plant Physiol, 2009 Jan. PMID 18987217, Free PMC Article
    2. 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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in photomorphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription 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
    B-box zinc finger protein 20
    Names
    AP2-EREBP transcription factor
    Os04g0540200

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      27531522..27533700
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015778537.3 → XP_015634023.1  B-box zinc finger protein 20 isoform X2

      UniProtKB/TrEMBL
      A2XVZ8, A3AVZ9, Q01IP9, Q0JBD4, Q7XR92
      Conserved Domains (1) summary
      cd19821
      Location:5 → 47
      Bbox1_BBX-like; B-box-type 1 zinc finger found in B-box (BBX) family of plant transcription factors and similar proteins

    2. XM_015778536.3 → XP_015634022.1  B-box zinc finger protein 20 isoform X1

      UniProtKB/TrEMBL
      Q01IP9
      Conserved Domains (1) summary
      smart00336
      Location:2 → 47
      BBOX; B-Box-type zinc finger
    Nucleotide Protein
    Heading Accession and Version

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