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    RPB5D RNA polymerase II fifth largest subunit, D [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 818732, updated on 18-Sep-2024

    Summary

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    Official Symbol
    RPB5D
    Official Full Name
    RNA polymerase II fifth largest subunit, D
    Primary source
    TAIR:AT2G41340
    Locus tag
    AT2G41340
    See related
    Araport:AT2G41340
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    ''RNA polymerase II fifth largest subunit; D; D''; F13H10.11; F13H10_11; RNA polymerase II fifth largest subunit
    Summary
    NRPE5-like protein of unknown function; homologous to budding yeast RPB5
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    Genomic context

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    See RPB5D in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    3
    Sequence:
    Chromosome: 2; NC_003071.7 (17228733..17231082)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Glutaredoxin family protein Neighboring gene uncharacterized protein Neighboring gene HAUS augmin-like complex subunit Neighboring gene uncharacterized protein Neighboring gene galactose oxidase/kelch repeat protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. SHH1, a homeodomain protein required for DNA methylation, as well as RDR2, RDM4, and chromatin remodeling factors, associate with RNA polymerase IV. Law JA, et al. PLoS Genet, 2011 Jul. PMID 21811420, Free PMC Article
    2. Subunit compositions of the RNA-silencing enzymes Pol IV and Pol V reveal their origins as specialized forms of RNA polymerase II. Ream TS, et al. Mol Cell, 2009 Jan 30. PMID 19110459, Free PMC Article
    3. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-directed 5'-3' RNA polymerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase IV complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of RNA polymerase V complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    RNA polymerase II fifth largest subunit, D
    NP_181665.1
    • ''RNA polymerase II fifth largest subunit, D'' (RPB5D); FUNCTIONS IN: DNA-directed RNA polymerase activity, DNA binding; INVOLVED IN: transcription; LOCATED IN: nucleus; EXPRESSED IN: 14 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: RNA polymerase, Rpb5, N-terminal (InterPro:IPR005571), RNA polymerase, subunit H/Rpb5 C-terminal (InterPro:IPR000783), DNA-directed RNA polymerase, RPB5 subunit (InterPro:IPR014381); BEST Arabidopsis thaliana protein match is: Eukaryotic rpb5 RNA polymerase subunit family protein (TAIR:AT3G57080.1); Has 971 Blast hits to 971 proteins in 339 species: Archae - 231; Bacteria - 0; Metazoa - 155; Fungi - 216; Plants - 119; Viruses - 8; Other Eukaryotes - 242 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003071.7 Reference assembly

      Range
      17228733..17231082
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001336901.1 → NP_001324726.1  RNA polymerase II fifth largest subunit, D [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B115, A0A654F0U7

    2. NM_001336902.1 → NP_001324725.1  RNA polymerase II fifth largest subunit, D [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8B0Z3, A0A654F0U7

    3. NM_129697.3 → NP_181665.1  RNA polymerase II fifth largest subunit, D [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_181665.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9ZVB9
      UniProtKB/TrEMBL
      A0A178VXX0, A0A5S9X603, A0A654F0U7
      Conserved Domains (1) summary
      PLN03111
      Location:14 → 217
      PLN03111; DNA-directed RNA polymerase II subunit family protein; Provisional
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ZVB9.1

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