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    LOC4340256 DNA-directed RNA polymerase I subunit rpa43 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340256, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4340256
    Gene description
    DNA-directed RNA polymerase I subunit rpa43
    Locus tag
    OSNPB_060168400
    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 3.4), leaves after flowering (RPKM 2.6) and 6 other tissues See more
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    Genomic context

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    See LOC4340256 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (3602845..3605819)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (3440042..3443078)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107277937 Neighboring gene mitochondrial outer membrane import complex protein METAXIN Neighboring gene syntaxin-132 Neighboring gene ribonucleoside-diphosphate reductase large subunit

    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. 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

    Process Evidence Code Pubs
    involved_in DNA-templated transcription initiation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of RNA polymerase I complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-directed RNA polymerase I subunit rpa43; uncharacterized protein LOC4340256
    Names
    OSJNBa0033B09.16
    Os06g0168400
    P0680A03.37
    RNA polymerase Rpa43 subunit-like

    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
      3602845..3605819
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015786320.3 → XP_015641806.1  DNA-directed RNA polymerase I subunit rpa43 isoform X2

      UniProtKB/TrEMBL
      A2YYI7, B9FRQ5
      Conserved Domains (1) summary
      cl04309
      Location:8 → 82
      RNAP_Rpb7_N_like; This conserved domain represents the N-terminal ribonucleoprotein (RNP) domain of the Rpb7 subunit of eukaryotic RNA polymerase (RNAP) II and its homologs, Rpa43 of eukaryotic RNAP I, Rpc25 of eukaryotic RNAP III, and RpoE (subunit E) of archaeal RNAP. ...

    2. XM_015786321.3 → XP_015641807.1  DNA-directed RNA polymerase I subunit rpa43 isoform X3

      Conserved Domains (1) summary
      cl04309
      Location:8 → 82
      RNAP_Rpb7_N_like; This conserved domain represents the N-terminal ribonucleoprotein (RNP) domain of the Rpb7 subunit of eukaryotic RNA polymerase (RNAP) II and its homologs, Rpa43 of eukaryotic RNAP I, Rpc25 of eukaryotic RNAP III, and RpoE (subunit E) of archaeal RNAP. ...

    3. XM_066311934.1 → XP_066168031.1  uncharacterized protein LOC4340256 isoform X1

      UniProtKB/TrEMBL
      A0A5S6RAL1, Q0DE85, Q5VRF7
    Nucleotide Protein
    Heading Accession and Version

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