Format

Send to:

Choose Destination

Polr2a polymerase (RNA) II (DNA directed) polypeptide A [ Mus musculus (house mouse) ]

Gene ID: 20020, updated on 29-Oct-2021

Summary

Official Symbol
Polr2aprovided by MGI
Official Full Name
polymerase (RNA) II (DNA directed) polypeptide Aprovided by MGI
Primary source
MGI:MGI:98086
See related
Ensembl:ENSMUSG00000005198
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rpb1; 220kDa; Rpo2-1
Expression
Ubiquitous expression in thymus adult (RPKM 39.8), limb E14.5 (RPKM 30.7) and 28 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Polr2a in Genome Data Viewer
Location:
11 B3; 11 42.86 cM
Exon count:
29
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (69624823..69649459, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (69733997..69758633, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (69547912..69571725, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene tumor necrosis factor (ligand) superfamily, member 13, opposite strand Neighboring gene tumor necrosis factor (ligand) superfamily, membrane-bound member 13 Neighboring gene tumor necrosis factor (ligand) superfamily, member 13 Neighboring gene tumor necrosis factor (ligand) superfamily, member 12 Neighboring gene solute carrier family 35, member G3 Neighboring gene zinc finger and BTB domain containing 4

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
contributes_to DNA-directed 5'-3' RNA polymerase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to RNA polymerase II activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables core promoter sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables kinase binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotidyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables promoter-specific chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables protein C-terminus binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in DNA-templated transcription, termination ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of RNA splicing ISO
Inferred from Sequence Orthology
more info
 
involved_in transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of Prp19 complex ISO
Inferred from Sequence Orthology
more info
 
part_of RNA polymerase II, core complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of RNA polymerase II, core complex ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in euchromatin IDA
Inferred from Direct Assay
more info
PubMed 
NOT located_in nucleolus ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
DNA-directed RNA polymerase II subunit RPB1
Names
DNA-directed RNA polymerase II subunit A
DNA-directed RNA polymerase III largest subunit
RNA polymerase II 1
RNA polymerase II subunit B1
NP_001277997.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001291068.1NP_001277997.1  DNA-directed RNA polymerase II subunit RPB1

    See identical proteins and their annotated locations for NP_001277997.1

    Status: VALIDATED

    Source sequence(s)
    AL603707
    Consensus CDS
    CCDS70217.1
    UniProtKB/Swiss-Prot
    P08775
    Related
    ENSMUSP00000050771.10, ENSMUST00000058470.16
    Conserved Domains (5) summary
    cd02584
    Location:10581476
    RNAP_II_Rpb1_C; Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain
    smart01104
    Location:14911610
    CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    cd02733
    Location:19876
    RNAP_II_RPB1_N; Largest subunit (Rpb1) of eukaryotic RNA polymerase II (RNAP II), N-terminal domain
    pfam04992
    Location:8961079
    RNA_pol_Rpb1_6; RNA polymerase Rpb1, domain 6
    cl25496
    Location:18571961
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    69624823..69649459 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_009089.2: Suppressed sequence

    Description
    NM_009089.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Support Center