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    LOC4324952 5'-3' exoribonuclease 3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324952, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4324952
    Gene description
    5'-3' exoribonuclease 3
    Locus tag
    OSNPB_010872700
    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 73.3), roots after flowering (RPKM 70.9) and 6 other tissues See more
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    Genomic context

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    See LOC4324952 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (37844992..37852790, complement)

    Chromosome 1 - NC_029256.1Genomic Context describing neighboring genes Neighboring gene protein NRT1/ PTR FAMILY 5.10-like Neighboring gene CRIB domain-containing protein RIC10-like Neighboring gene 3-phosphoinositide-dependent protein kinase 2 Neighboring gene glutathione S-transferase T3

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029256.1 Chromosome 1 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 3
    Names
    OSJNBb0008G24.22
    Os01g0872700
    P0491F11.16
    putative 5'-3' exoribonuclease (XRN3)
    putative 5-3 exoribonuclease

    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_029256.1 Reference IRGSP-1.0 Primary Assembly

      Range
      37844992..37852790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015765634.2 → XP_015621120.1  5'-3' exoribonuclease 3 isoform X1

      UniProtKB/TrEMBL
      A0A0P0VB47, A2WXG4, Q5N739
      Conserved Domains (2) summary
      COG5049
      Location:1 → 857
      XRN1; 5'-3' exonuclease [Replication, recombination and repair]
      PRK14086
      Location:912 → 1068
      dnaA; chromosomal replication initiator protein DnaA

    2. XM_015765635.1 → XP_015621121.1  5'-3' exoribonuclease 3 isoform X2

      UniProtKB/TrEMBL
      A2WXG4
      Conserved Domains (2) summary
      COG5049
      Location:1 → 814
      XRN1; 5'-3' exonuclease [Replication, recombination and repair]
      PRK14086
      Location:869 → 1025
      dnaA; chromosomal replication initiator protein DnaA
    Nucleotide Protein
    Heading Accession and Version

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