Polr1b RNA polymerase I subunit B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Polr1bprovided by RGD
Official Full Name: RNA polymerase I subunit Bprovided by RGD
Primary source: RGD:620822
See related: EnsemblRapid:ENSRNOG00000018349 AllianceGenome:RGD:620822
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RPA2; Rpo1-2
Summary: Contributes to DNA-directed 5'-3' RNA polymerase activity. Involved in rRNA transcription. Part of RNA polymerase I complex. 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, Dec 2024]
Expression: Biased expression in Spleen (RPKM 78.1), Muscle (RPKM 75.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q36

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (136787130..136811608)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (116333910..116358385)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (121632043..121656506)

Chromosome 3 - NC_086021.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH139042 (e-PCR)
- UniSTS:221128

RH140641 (e-PCR)
- UniSTS:222710

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
contributes_to DNA-directed 5'-3' RNA polymerase activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-directed 5'-3' RNA polymerase activity	ISO Inferred from Sequence Orthology more info
enables DNA/RNA hybrid binding	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase III activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase IV activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase V activity	IEA Inferred from Electronic Annotation more info
enables mitochondrial single subunit type RNA polymerase activity	IEA Inferred from Electronic Annotation more info
enables plastid single subunit type RNA polymerase activity	IEA Inferred from Electronic Annotation more info
enables ribonucleoside binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in embryo implantation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryo implantation	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial transcription	IEA Inferred from Electronic Annotation more info
involved_in neural crest formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleologenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nucleologenesis	ISO Inferred from Sequence Orthology more info
involved_in plastid transcription	IEA Inferred from Electronic Annotation more info
involved_in rRNA transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in rRNA transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within rRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in transcription by RNA polymerase I	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase III	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase IV	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase V	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
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	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase I complex	ISO Inferred from Sequence Orthology more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome	ISO Inferred from Sequence Orthology more info
located_in chromosome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in fibrillar center	IEA Inferred from Electronic Annotation more info
located_in fibrillar center	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA-directed RNA polymerase I subunit RPA2

Names: A127; RNA polymerase 1-2; RNA polymerase I (127 kDa subunit); RNA polymerase I polypeptide B; RNA polymerase I subunit 2; RPA135; polymerase (RNA) I polypeptide B; polymerase (RNA) I subunit B

NP_113961.2

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_031773.2 → NP_113961.2 DNA-directed RNA polymerase I subunit RPA2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

O54888

UniProtKB/TrEMBL

A6HQ47, F1LM57

Related

ENSRNOP00000024882.5, ENSRNOT00000024882.6

Conserved Domains (3) summary

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