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    LOC4340263 zinc finger CCCH domain-containing protein 40-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340263, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4340263
    Gene description
    zinc finger CCCH domain-containing protein 40-like
    Locus tag
    OSNPB_060170500
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    OsC3H40; OsJ_019459; P0675A05.7
    Expression
    Ubiquitous expression in mature seeds (RPKM 62.8), roots after flowering (RPKM 43.8) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 6
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (3699983..3703539, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (3536737..3540232, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene protein GOS9-like Neighboring gene putative wall-associated receptor kinase-like 16 Neighboring gene uncharacterized LOC136356810 Neighboring gene F-box/LRR-repeat/kelch-repeat protein At1g09650-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 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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, 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 U6 snRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables pre-mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Prp19 complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of U2-type catalytic step 1 spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of U2-type catalytic step 2 spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger CCCH domain-containing protein 40
    Names
    LOC_Os06g07350
    RRM-containing RNA-binding protein-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001421231.1 → NP_001408160.1  zinc finger CCCH domain-containing protein 40

      Status: VALIDATED

      Source sequence(s)
      CB656228, CB657300, CI322618, CI602184
      UniProtKB/Swiss-Prot
      B7F5T3, Q5SNN4
      UniProtKB/TrEMBL
      A0A0P0WTE0

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      3699983..3703539 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5SNN4.1 GenPept UniProtKB/Swiss-Prot:Q5SNN4

    Gene LinkOut

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    Research Materials