Polr1a RNA polymerase I subunit A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Polr1aprovided by RGD
Official Full Name: RNA polymerase I subunit Aprovided by RGD
Primary source: RGD:620824
See related: EnsemblRapid:ENSRNOG00000009545 AllianceGenome:RGD:620824
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: Rpa1; Rpo1-4
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 acrofacial dysostosis Cincinnati type and hypomyelinating leukodystrophy. Orthologous to human POLR1A (RNA polymerase I subunit A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 117.9), Adrenal (RPKM 93.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q32

Exon count:: 34

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (105508305..105572272)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (103950051..104014022)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (99822964..99903969)

Chromosome 4 - NC_086022.1 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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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 I activity	ISO Inferred from Sequence Orthology 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 chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables magnesium ion binding	IEA Inferred from Electronic Annotation more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology 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 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 mitochondrial transcription	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein localization to nucleolus	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 plastid transcription	IEA Inferred from Electronic Annotation more info
involved_in rRNA transcription	IDA Inferred from Direct Assay more info	PubMed
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 nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA-directed RNA polymerase I subunit RPA1

Names: A194; DNA-directed RNA polymerase I A; DNA-directed RNA polymerase I largest subunit; DNA-directed RNA polymerase I subunit A; RNA polymerase 1-4; RNA polymerase I 194 kDa subunit; RNA polymerase I subunit A1; RPA194; polymerase (RNA) I polypeptide A; polymerase (RNA) I subunit A

NP_113960.2

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_031772.2 → NP_113960.2 DNA-directed RNA polymerase I subunit RPA1

Status: VALIDATED

Source sequence(s)

AF025425, JAXUCZ010000004

UniProtKB/Swiss-Prot

O54889

UniProtKB/TrEMBL

A6IA93, G3V7B7

Related

ENSRNOP00000013587.2, ENSRNOT00000013587.4

Conserved Domains (2) summary

cd01435
Location:16 → 1011

RNAP_I_RPA1_N; Largest subunit (RPA1) of eukaryotic RNA polymerase I (RNAP I), N-terminal domain

pfam04998
Location:965 → 1666

RNA_pol_Rpb1_5; RNA polymerase Rpb1, domain 5