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

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: human all
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Genomic context

Location:: 2 F1; 2 62.68 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Increased transcription and protein expression of polymerase I regulon is consistent with the increase in ribosomal RNA following skeletal muscle hypertrophy.
Title: Mechanical loading induces the expression of a Pol I regulon at the onset of skeletal muscle hypertrophy.
These results indicate that the loss of rDNA transcription induced nucleolar structure disorganization and apoptosis in preimplantation embryos.
Title: Early pre-implantation lethality in mice carrying truncated mutation in the RNA polymerase 1-2 gene.

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Variation

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Alleles

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

Gene trapped (1) 1 citation
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Rpo1-2 (e-PCR), detects polymorphism
- UniSTS:479253

D10Mit157.2 (e-PCR), detects polymorphism
- UniSTS:126061

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 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
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
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
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

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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

EC 2.7.7.6

XP_006499088.1

EC 2.7.7.6

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)

NM_009086.2 → NP_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

UniProtKB/TrEMBL

Q6P9Q2

Related

ENSMUSP00000099494.5, ENSMUST00000103205.11

Conserved Domains (4) summary

COG0085
Location:35 → 1134

RpoB; DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]

cd00653
Location:38 → 1133

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:186 → 375

RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2

pfam06883
Location:563 → 616

RNA_pol_Rpa2_4; RNA polymerase I, Rpa2 specific domain

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

NC_000068.8 Reference GRCm39 C57BL/6J

Range

128942891..128969980

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

Q6P9Q2

Conserved Domains (2) summary

cd00653
Location:38 → 1079

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:186 → 375

RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2