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    LOC4347787 25S rRNA (cytosine-C(5))-methyltransferase nop2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4347787, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4347787
    Gene description
    25S rRNA (cytosine-C(5))-methyltransferase nop2
    Locus tag
    OSNPB_090551300
    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 flower buds (RPKM 28.2), leaves before flowering (RPKM 24.4) and 6 other tissues See more
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    Genomic context

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    See LOC4347787 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (21828169..21833465)

    Chromosome 9 - NC_029264.1Genomic Context describing neighboring genes Neighboring gene G-type lectin S-receptor-like serine/threonine-protein kinase At1g11300 Neighboring gene receptor-like serine/threonine-protein kinase SD1-8 Neighboring gene uncharacterized LOC107278949 Neighboring gene G-type lectin S-receptor-like serine/threonine-protein kinase At1g11300

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029264.1 Chromosome 9 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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables rRNA (cytosine-C5-)-methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in maturation of LSU-rRNA IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in rRNA base methylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    25S rRNA (cytosine-C(5))-methyltransferase nop2
    Names
    Os09g0551300
    P0489D11.25
    putative nucleolar protein

    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_029264.1 Reference IRGSP-1.0 Primary Assembly

      Range
      21828169..21833465
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756522.2 → XP_015612008.1  25S rRNA (cytosine-C(5))-methyltransferase nop2

      UniProtKB/TrEMBL
      A0A0P0XQN7, B8BEE6, B9G4X7, Q69MP1
      Conserved Domains (2) summary
      COG0144
      Location:187 → 545
      RsmB; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]
      NF033845
      Location:46 → 173
      MSCRAMM_ClfB; MSCRAMM family adhesin clumping factor ClfB
    Nucleotide Protein
    Heading Accession and Version

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