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    LOC4339641 putative rRNA methyltransferase [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339641, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4339641
    Gene description
    putative rRNA methyltransferase
    Locus tag
    OSNPB_050567400
    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 34.9), mature seeds (RPKM 34.4) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (28245036..28249550)

    Chromosome 5 - NC_029260.1Genomic Context describing neighboring genes Neighboring gene probable WRKY transcription factor 31 Neighboring gene white stripe leaf6 Neighboring gene probable DNA-3-methyladenine glycosylase 2 Neighboring gene protein RADIALIS-like 3 Neighboring gene sugar transporter ERD6-like 4

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029260.1 Chromosome 5 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 rRNA (guanine) methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables rRNA (uridine-2'-O-)-methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in rRNA methylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of preribosome, large subunit precursor IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    putative rRNA methyltransferase
    Names
    Os05g0567400

    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_029260.1 Reference IRGSP-1.0 Primary Assembly

      Range
      28245036..28249550
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015783981.1 → XP_015639467.1  putative rRNA methyltransferase

      UniProtKB/TrEMBL
      A0A0P0WQY3, Q0DFV9, Q688W3
      Conserved Domains (4) summary
      PTZ00121
      Location:323 → 757
      PTZ00121; MAEBL; Provisional
      COG0293
      Location:6 → 204
      RlmE; 23S rRNA U2552 (ribose-2'-O)-methylase RlmE/FtsJ [Translation, ribosomal structure and biogenesis]
      pfam07780
      Location:594 → 786
      Spb1_C; Spb1 C-terminal domain
      pfam11861
      Location:233 → 358
      DUF3381; Domain of unknown function (DUF3381)
    Nucleotide Protein
    Heading Accession and Version

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