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    LOC4341695 DNA-directed RNA polymerase 3B, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4341695, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4341695
    Gene description
    DNA-directed RNA polymerase 3B, chloroplastic
    Locus tag
    OSNPB_060652000
    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
    RpoT2
    Expression
    Broad expression in leaves before flowering (RPKM 39.9), roots after flowering (RPKM 31.8) and 6 other tissues See more
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    Genomic context

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    See LOC4341695 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (27544178..27554033)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (26680175..26690053)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene probable protein phosphatase 2C 58 Neighboring gene hydrophobic protein LTI6A-like Neighboring gene uncharacterized LOC4341696 Neighboring gene heptahelical transmembrane protein ADIPOR2-like

    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 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. Characterization of a rice nuclear-encoded plastid RNA polymerase gene OsRpoTp. Kusumi K, et al. Plant Cell Physiol, 2004 Sep. PMID 15509842
    2. Sequences homologous to yeast mitochondrial and bacteriophage T3 and T7 RNA polymerases are widespread throughout the eukaryotic lineage. Cermakian N, et al. Nucleic Acids Res, 1996 Feb 15. PMID 8604305, 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
    4. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    5. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA-directed 5'-3' RNA polymerase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mitochondrial transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of mitochondrial DNA-directed RNA polymerase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-directed RNA polymerase 3B, chloroplastic
    Names
    Os06g0652000
    P0453H04.42
    T3/T7-like RNA polymerase
    T7 bacteriophage-type single subunit RNA polymerase
    putative T7 bacteriophage-type single subunit RNA polymerase

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      27544178..27554033
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788508.3 → XP_015643994.1  DNA-directed RNA polymerase 3B, chloroplastic

      UniProtKB/TrEMBL
      A2YFP7, Q84LK5
      Conserved Domains (2) summary
      COG5108
      Location:117 → 952
      RPO41; Mitochondrial DNA-directed RNA polymerase [Transcription]
      pfam00940
      Location:562 → 952
      RNA_pol; DNA-dependent RNA polymerase
    Nucleotide Protein
    Heading Accession and Version

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