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    LOC4327482 zinc finger protein VAR3, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327482, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4327482
    Gene description
    zinc finger protein VAR3, chloroplastic
    Locus tag
    OSNPB_010815700
    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 leaves before flowering (RPKM 45.4), roots after flowering (RPKM 27.8) and 6 other tissues See more
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    Genomic context

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    See LOC4327482 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (35285054..35289249)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (34677993..34682230)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized protein At5g19025 Neighboring gene uncharacterized LOC136353677 Neighboring gene uncharacterized LOC4327481 Neighboring gene large ribosomal subunit protein eL24 Neighboring gene pentatricopeptide repeat-containing protein At2g22410, mitochondrial Neighboring gene pentatricopeptide repeat-containing protein At1g09220, mitochondrial-like

    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. 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 mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger protein VAR3, chloroplastic
    Names
    OSJNBa0085D07.40
    Os01g0815700
    putative ZnF_RBZ domain protein

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      35285054..35289249
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015766113.3 → XP_015621599.1  zinc finger protein VAR3, chloroplastic

      UniProtKB/TrEMBL
      Q0JIA0, Q5N755
      Conserved Domains (3) summary
      smart00547
      Location:254 → 276
      ZnF_RBZ; Zinc finger domain
      sd00029
      Location:256 → 275
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:287 → 314
      zf-RanBP; Zn-finger in Ran binding protein and others
    Nucleotide Protein
    Heading Accession and Version

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