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    LOC4329508 ribonuclease TUDOR 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329508, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4329508
    Gene description
    ribonuclease TUDOR 1
    Locus tag
    OSNPB_020523500
    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
    P0415B12.4
    Expression
    Ubiquitous expression in milk grains (RPKM 127.6), leaves after flowering (RPKM 96.4) and 6 other tissues See more
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    Genomic context

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    See LOC4329508 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (19576618..19583193, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (19098884..19105528, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107278022 Neighboring gene uncharacterized LOC4329507 Neighboring gene inositol polyphosphate multikinase IPK2-like Neighboring gene uncharacterized LOC136355016

    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. Identification of a cytoskeleton-associated 120 kDa RNA-binding protein in developing rice seeds. Sami-Subbu R, et al. Plant Mol Biol, 2001 May. PMID 11437252
    2. The RNA binding protein Tudor-SN is essential for stress tolerance and stabilizes levels of stress-responsive mRNAs encoding secreted proteins in Arabidopsis. Frei dit Frey N, et al. Plant Cell, 2010 May. PMID 20484005, Free PMC Article
    3. 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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables nuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RISC complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    ribonuclease TUDOR 1
    Names
    OSJNBa0047A17.32
    Os02g0523500
    RNA binding protein Rp120
    staphylococcal nuclease domain-containing protein 1

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      19576618..19583193 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770005.2 → XP_015625491.1  ribonuclease TUDOR 1

      UniProtKB/TrEMBL
      Q6H547, Q6H7C3, Q7X6J0, S4U073
      Conserved Domains (3) summary
      cl29560
      Location:11 → 148
      SNc; Staphylococcal nuclease homologues
      cd20443
      Location:742 → 857
      Tudor_AtTudor1-like; Tudor domain found in Arabidopsis thaliana ribonuclease Tudor 1 (AtTudor1), ribonuclease Tudor 2 (AtTudor2), and similar proteins
      cl00140
      Location:388 → 554
      SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.

    2. XM_015770004.3 → XP_015625490.1  ribonuclease TUDOR 1

      UniProtKB/TrEMBL
      Q6H547, Q6H7C3, Q7X6J0, S4U073
      Conserved Domains (3) summary
      cl29560
      Location:11 → 148
      SNc; Staphylococcal nuclease homologues
      cd20443
      Location:742 → 857
      Tudor_AtTudor1-like; Tudor domain found in Arabidopsis thaliana ribonuclease Tudor 1 (AtTudor1), ribonuclease Tudor 2 (AtTudor2), and similar proteins
      cl00140
      Location:388 → 554
      SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
    Nucleotide Protein
    Heading Accession and Version

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