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

    Gene ID: 20020, updated on 2-Jul-2019

    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

    Genomic context

    See Polr2a in Genome Data Viewer
    Location:
    11 B3; 11 42.86 cM
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 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_000077.6Genomic 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 FunctionsWhat's a GeneRIF?

    Variation

    Alleles

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

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    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 
    core promoter binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    nucleotidyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    promoter-specific chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    DNA-templated transcription, termination ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of RNA splicing ISO
    Inferred from Sequence Orthology
    more info
     
    transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    colocalizes_with Prp19 complex ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II, core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II, core complex ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear euchromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT nucleolus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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)

    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
      ENSMUSP00000050771.9, ENSMUST00000058470.15
      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 106 details...Open this link in a new tab

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000077.6 Reference GRCm38.p4 C57BL/6J

      Range
      69733997..69758633 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.
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