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Polr1a polymerase (RNA) I polypeptide A [ Mus musculus (house mouse) ]

Gene ID: 20019, updated on 11-Apr-2024

Summary

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Official Symbol
Polr1aprovided by MGI
Official Full Name
polymerase (RNA) I polypeptide Aprovided by MGI
Primary source
MGI:MGI:1096397
See related
Ensembl:ENSMUSG00000049553 AllianceGenome:MGI:1096397
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
mRPA1; 194kDa; RPA194; Rpo1-4; 2900087K15Rik; 3010014K16Rik
Summary
Predicted to enable RNA polymerase I activity and chromatin binding activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in negative regulation of protein localization to nucleolus and rRNA transcription. Located in chromosome and nucleus. Part of RNA polymerase I complex. Is expressed in several structures, including alimentary system; brain; early conceptus; genitourinary system; and integumental system. Human ortholog(s) of this gene implicated in acrofacial dysostosis Cincinnati type. Orthologous to human POLR1A (RNA polymerase I subunit A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary adult (RPKM 10.9), adrenal adult (RPKM 8.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Polr1a in Genome Data Viewer
Location:
6 C1; 6 32.21 cM
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (71886037..71956419)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (71909053..71979435)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene inner membrane protein, mitochondrial Neighboring gene ribosomal protein L7A pseudogene Neighboring gene small nucleolar RNA, C/D box 94 Neighboring gene pentatricopeptide repeat domain 3 Neighboring gene STARR-positive B cell enhancer ABC_E9096 Neighboring gene STARR-positive B cell enhancer ABC_E6439 Neighboring gene STARR-seq mESC enhancer starr_16273 Neighboring gene STARR-seq mESC enhancer starr_16274 Neighboring gene eukaryotic translation initiation factor 3, subunit H pseudogene Neighboring gene STARR-seq mESC enhancer starr_16275 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:71912891-71913074 Neighboring gene predicted gene, 26628 Neighboring gene VISTA enhancer mm1722 Neighboring gene RIKEN cDNA 9130221F21 gene Neighboring gene STARR-seq mESC enhancer starr_16277 Neighboring gene spermine synthase pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. POLR1A variants underlie phenotypic heterogeneity in craniofacial, neural, and cardiac anomalies. Smallwood K, et al. Am J Hum Genet, 2023 May 4. PMID 37075751, Free PMC Article
  2. A kinetic framework for a mammalian RNA polymerase in vivo. Dundr M, et al. Science, 2002 Nov 22. PMID 12446911
  3. Molecular cloning and characterization of the cDNA encoding the largest subunit of mouse RNA polymerase I. Seither P, et al. Mol Gen Genet, 1997 Jun. PMID 9236775
  4. CTCF regulates the local epigenetic state of ribosomal DNA repeats. van de Nobelen S, et al. Epigenetics Chromatin, 2010 Nov 8. PMID 21059229, Free PMC Article
  5. The chromatin remodeling factor CSB recruits histone acetyltransferase PCAF to rRNA gene promoters in active state for transcription initiation. Shen M, et al. PLoS One, 2013. PMID 23667505, Free PMC Article

See all (31) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
contributes_to DNA-directed 5'-3' RNA polymerase activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-directed 5'-3' RNA polymerase activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA/RNA hybrid binding ISO
Inferred from Sequence Orthology
more info
  
contributes_to RNA polymerase I activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase I activity ISO
Inferred from Sequence Orthology
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables magnesium ion 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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of protein localization to nucleolus ISO
Inferred from Sequence Orthology
more info
  
involved_in rRNA transcription ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of DNA-directed RNA polymerase complex IEA
Inferred from Electronic Annotation
more info
  
part_of RNA polymerase I complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of RNA polymerase I complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of RNA polymerase I complex ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
DNA-directed RNA polymerase I subunit RPA1
Names
DNA-directed RNA polymerase I largest subunit
DNA-directed RNA polymerase I subunit A
RNA polymerase 1-4 (194 kDa subunit)
RNA polymerase I 194 kDa subunit
RNA polymerase I subunit A1
NP_033114.3
XP_006505867.1

NCBI Reference Sequences (RefSeq)

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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_009088.3 → NP_033114.3  DNA-directed RNA polymerase I subunit RPA1

    See identical proteins and their annotated locations for NP_033114.3

    Status: VALIDATED

    Source sequence(s)
    AK147379, AK160970, CJ260853
    Consensus CDS
    CCDS20236.1
    UniProtKB/Swiss-Prot
    O35134, Q7TSA9
    UniProtKB/TrEMBL
    Q3UHI3
    Related
    ENSMUSP00000060858.9, ENSMUST00000055296.11
    Conserved Domains (4) summary
    cd02735
    Location:1206 → 1713
    RNAP_I_Rpa1_C; Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain
    cd01435
    Location:16 → 1011
    RNAP_I_RPA1_N; Largest subunit (RPA1) of eukaryotic RNA polymerase I (RNAP I), N-terminal domain
    TIGR02390
    Location:10 → 1038
    RNA_pol_rpoA1; DNA-directed RNA polymerase subunit A'
    pfam04998
    Location:965 → 1668
    RNA_pol_Rpb1_5; RNA polymerase Rpb1, domain 5

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    71886037..71956419
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006505804.3 → XP_006505867.1  DNA-directed RNA polymerase I subunit RPA1 isoform X1

    Conserved Domains (2) summary
    cd01435
    Location:1 → 509
    RNAP_I_RPA1_N; Largest subunit (RPA1) of eukaryotic RNA polymerase I (RNAP I), N-terminal domain
    pfam04998
    Location:463 → 1165
    RNA_pol_Rpb1_5; RNA polymerase Rpb1, domain 5
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O35134.2 GenPept UniProtKB/Swiss-Prot:O35134

Gene LinkOut

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