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    LOC4330879 protein NRDE2 homolog [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4330879, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4330879
    Gene description
    protein NRDE2 homolog
    Locus tag
    OSNPB_020772500
    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
    Also known as
    OJ1611_C08.15
    Expression
    Ubiquitous expression in roots after flowering (RPKM 6.1), leaves before flowering (RPKM 6.0) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (32602122..32611324)

    Chromosome 2 - NC_029257.1Genomic Context describing neighboring genes Neighboring gene N-alpha-acetyltransferase 40 Neighboring gene uncharacterized LOC107277523 Neighboring gene uncharacterized LOC9267910 Neighboring gene uncharacterized LOC107280098

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029257.1 Chromosome 2 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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of RNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein NRDE2 homolog
    Names
    Os02g0772500

    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_029257.1 Reference IRGSP-1.0 Primary Assembly

      Range
      32602122..32611324
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771633.2 → XP_015627119.1  protein NRDE2 homolog

      UniProtKB/TrEMBL
      B8AJ73, B9F3H2, Q6ZHF3
      Conserved Domains (3) summary
      pfam08424
      Location:296 → 685
      NRDE-2; necessary for RNA interference
      cd22200
      Location:163 → 267
      NRDE2_MID; MTR4-interacting domain (MID) found in nuclear exosome regulator NRDE2 and similar proteins
      cl26712
      Location:977 → 1123
      U3_assoc_6; U3 small nucleolar RNA-associated protein 6
    Nucleotide Protein
    Heading Accession and Version

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