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Polr1b polymerase (RNA) I polypeptide B [ Mus musculus (house mouse) ]

Gene ID: 20017, updated on 8-Dec-2022

Summary

Official Symbol
Polr1bprovided by MGI
Official Full Name
polymerase (RNA) I polypeptide Bprovided by MGI
Primary source
MGI:MGI:108014
See related
Ensembl:ENSMUSG00000027395 AllianceGenome:MGI:108014
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
RPA2; 128kDa; RPA116; RPA135; Rpo1-2; D630020H17Rik
Summary
Predicted to enable several functions, including DNA binding activity; metal ion binding activity; and ribonucleoside binding activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Acts upstream of or within embryo implantation; nucleologenesis; and rRNA transcription. Located in chromosome and nucleolus. Part of RNA polymerase I complex. Is expressed in several structures, including alimentary system; heart; integumental system; nervous system; and respiratory system. Human ortholog(s) of this gene implicated in Treacher Collins syndrome 4. Orthologous to human POLR1B (RNA polymerase I subunit B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 5.9), CNS E11.5 (RPKM 5.4) and 28 other tissues See more
Orthologs
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Genomic context

See Polr1b in Genome Data Viewer
Location:
2; 2 F1
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (128942891..128969980)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (129100970..129128060)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene vinculin/alpha-catenin family member 1 Neighboring gene predicted gene, 54152 Neighboring gene tubulin tyrosine ligase Neighboring gene predicted gene, 46764 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 5 Neighboring gene SET domain containing 3 pseudogene

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1)  1 citation
  • Endonuclease-mediated (1) 

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 IEA
Inferred from Electronic Annotation
more info
 
contributes_to DNA-directed 5'-3' RNA polymerase activity ISO
Inferred from Sequence Orthology
more info
 
contributes_to RNA polymerase I activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 ribonucleoside binding IEA
Inferred from Electronic Annotation
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryo development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryo implantation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within nucleologenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within rRNA transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
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
PubMed 
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 cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus 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

Preferred Names
DNA-directed RNA polymerase I subunit RPA2
Names
DNA-directed RNA polymerase I 135 kDa polypeptide
DNA-directed RNA polymerase I 135kDa polypeptide
RNA polymerase 1-2, 128 kDa subunit
RNA polymerase I subunit 2
NP_033112.2
XP_006499088.1

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_009086.2NP_033112.2  DNA-directed RNA polymerase I subunit RPA2

    See identical proteins and their annotated locations for NP_033112.2

    Status: VALIDATED

    Source sequence(s)
    AK143501, BB860575, U58280
    Consensus CDS
    CCDS16720.1
    UniProtKB/Swiss-Prot
    P70700, Q3UMX7
    Related
    ENSMUSP00000099494.5, ENSMUST00000103205.11
    Conserved Domains (4) summary
    COG0085
    Location:351134
    RpoB; DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]
    cd00653
    Location:381133
    RNA_pol_B_RPB2; RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase ...
    pfam04561
    Location:186375
    RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2
    pfam06883
    Location:563616
    RNA_pol_Rpa2_4; RNA polymerase I, Rpa2 specific domain

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    128942891..128969980
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006499025.4XP_006499088.1  DNA-directed RNA polymerase I subunit RPA2 isoform X1

    Conserved Domains (2) summary
    cd00653
    Location:381079
    RNA_pol_B_RPB2; RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase ...
    pfam04561
    Location:186375
    RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2

RNA

  1. XR_374430.5 RNA Sequence