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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

Gene LinkOut

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