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    LOC4334408 5'-3' exoribonuclease 4 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334408, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4334408
    Gene description
    5'-3' exoribonuclease 4
    Locus tag
    OSNPB_030794800
    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 roots after flowering (RPKM 52.2), leaves after flowering (RPKM 49.6) and 6 other tissues See more
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    Genomic context

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    See LOC4334408 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (33049338..33064913)

    Chromosome 3 - NC_029258.1Genomic Context describing neighboring genes Neighboring gene uncharacterized N-acetyltransferase p20 Neighboring gene glutamate dehydrogenase 1, mitochondrial-like Neighboring gene 40S ribosomal protein S18 Neighboring gene folate-biopterin transporter 1, chloroplastic Neighboring gene uncharacterized LOC4334411

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029258.1 Chromosome 3 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 5'-3' RNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process 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
    5'-3' exoribonuclease 4
    Names
    Os03g0794800
    Os03g0794900

    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_029258.1 Reference IRGSP-1.0 Primary Assembly

      Range
      33049338..33064913
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026023940.1 → XP_025879725.1  5'-3' exoribonuclease 4

      Conserved Domains (3) summary
      pfam07899
      Location:1189 → 1467
      Frigida; Frigida-like protein
      cl25764
      Location:881 → 1015
      PAT1; Topoisomerase II-associated protein PAT1
      cl27292
      Location:1 → 827
      XRN_N; XRN 5'-3' exonuclease N-terminus
    Nucleotide Protein
    Heading Accession and Version

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