Rpa1 replication protein A1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rpa1provided by MGI
Official Full Name: replication protein A1provided by MGI
Primary source: MGI:MGI:1915525
See related: Ensembl:ENSMUSG00000000751 AllianceGenome:MGI:1915525
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: Rpa; RF-A; RP-A; 70kDa; 5031405K23Rik
Summary: Enables chromatin binding activity. Acts upstream of or within several processes, including double-strand break repair via homologous recombination; homeostasis of number of cells within a tissue; and in utero embryonic development. Located in lateral element and male germ cell nucleus. Is expressed in respiratory system; submandibular gland; testis; and ventricular layer. Orthologous to human RPA1 (replication protein A1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in liver E14 (RPKM 24.0), liver E14.5 (RPKM 21.1) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 B5; 11 45.79 cM

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (75191085..75239478, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (75300259..75348454, complement)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data 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?

RPA guides UNG to uracil in ssDNA to facilitate antibody class switching and repair of mutagenic uracil at the replication fork.
Title: RPA guides UNG to uracil in ssDNA to facilitate antibody class switching and repair of mutagenic uracil at the replication fork.
Loss of RPA1 Impairs Peripheral T Cell Homeostasis and Exacerbates Inflammatory Damage through Triggering T Cell Necroptosis.
Title: Loss of RPA1 Impairs Peripheral T Cell Homeostasis and Exacerbates Inflammatory Damage through Triggering T Cell Necroptosis.
The Configuration of RPA, RAD51, and DMC1 Binding in Meiosis Reveals the Nature of Critical Recombination Intermediates.
Title: The Configuration of RPA, RAD51, and DMC1 Binding in Meiosis Reveals the Nature of Critical Recombination Intermediates.
localization of the replication protein A (RPA) complex on the chromosome axes meiotic prophase in mouse spermatocytes, is reported.
Title: Structured illumination microscopy imaging reveals localization of replication protein A between chromosome lateral elements during mammalian meiosis.
Using an inducible germline-specific inactivation strategy, we find that loss of RPA completely abrogates loading of RAD51/DMC1 recombinases to programmed meiotic DNA double strand breaks, thus blocking strand invasion required for chromosome pairing and synapsis.
Title: Dual functions for the ssDNA-binding protein RPA in meiotic recombination.
The recovery of abnormal phenotypes of mutant Ataxin-1 knock-in (Atxn1-KI) mice in the dendrite and spine morphology of Purkinje cells by AAV vector-mediated expression of RpA1 was reported.
Title: RpA1 ameliorates symptoms of mutant ataxin-1 knock-in mice and enhances DNA damage repair.
The authors establish that a second Dna2-Rpa interaction is mutually exclusive with Rpa-DNA interactions and mediates the displacement of Rpa from ssDNA.
Title: Dna2 nuclease-helicase structure, mechanism and regulation by Rpa.
LT prevents recruitment of RPA to nuclear foci after DNA damage. This leads to failure to recruit repair proteins such as Rad51 or Rad9, explaining why LT prevents repair of double strand DNA breaks by homologous recombination.
Title: Viral interference with DNA repair by targeting of the single-stranded DNA binding protein RPA.
Most RPA recruitment during class switch recombination represents salvage of unrepaired breaks by homology-based pathways during the S-G2/M phase of the cell cycle.
Title: RPA accumulation during class switch recombination represents 5'-3' DNA-end resection during the S-G2/M phase of the cell cycle.
POT1a degradation resulted in rapid and reversible activation of the ATR pathway in G1 and S/G2.
Title: A Shld1-controlled POT1a provides support for repression of ATR signaling at telomeres through RPA exclusion.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

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

Endonuclease-mediated (2)
Targeted (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH125008 (e-PCR)
- UniSTS:161830

AW557552 (e-PCR)
- UniSTS:185896

D11Bhm21 (e-PCR), detects polymorphism
- UniSTS:141620

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables G-rich strand telomeric DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin-protein adaptor activity	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables damaged DNA binding	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables single-stranded telomeric DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
involved_in DNA replication	ISO Inferred from Sequence Orthology more info
involved_in DNA replication	ISS Inferred from Sequence or Structural Similarity more info
involved_in base-excision repair	ISO Inferred from Sequence Orthology more info
involved_in base-excision repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in double-strand break repair via homologous recombination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within double-strand break repair via homologous recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hemopoiesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homeostasis of number of cells within a tissue	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within in utero embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in meiotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within meiotic cell cycle	IDA Inferred from Direct Assay more info	PubMed
involved_in mismatch repair	ISO Inferred from Sequence Orthology more info
involved_in mismatch repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleotide-excision repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in nucleotide-excision repair	ISO Inferred from Sequence Orthology more info
involved_in nucleotide-excision repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein localization to chromosome	ISO Inferred from Sequence Orthology more info
involved_in protein localization to chromosome	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to site of double-strand break	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance via telomerase	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of DNA replication factor A complex	IBA Inferred from Biological aspect of Ancestor more info
part_of DNA replication factor A complex	ISO Inferred from Sequence Orthology more info
part_of DNA replication factor A complex	ISS Inferred from Sequence or Structural Similarity more info
colocalizes_with PML body	ISO Inferred from Sequence Orthology more info
located_in PML body	ISO Inferred from Sequence Orthology more info
located_in condensed chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in condensed nuclear chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in lateral element	IDA Inferred from Direct Assay more info	PubMed
located_in male germ cell nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in site of DNA damage	ISO Inferred from Sequence Orthology more info
located_in site of DNA damage	ISS Inferred from Sequence or Structural Similarity more info
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: replication protein A 70 kDa DNA-binding subunit

Names: RF-A protein 1; RP-A p70; replication factor A protein 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)

NM_001164223.1 → NP_001157695.1 replication protein A 70 kDa DNA-binding subunit isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AK148035, AK152296, BE981198, CJ078143, CJ086677

Consensus CDS

CCDS48847.1

UniProtKB/TrEMBL

Q3U8B3, Q5SWN2

Related

ENSMUSP00000000767.6, ENSMUST00000000767.6

Conserved Domains (5) summary

cd04474
Location:216 → 318

RPA1_DBD_A; RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which ...

cd04475
Location:346 → 446

RPA1_DBD_B; RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which ...

TIGR00617
Location:2 → 642

rpa1; replication factor-a protein 1 (rpa1)

pfam04057
Location:5 → 125

Rep-A_N; Replication factor-A protein 1, N-terminal domain

pfam08646
Location:491 → 636

Rep_fac-A_C; Replication factor-A C terminal domain
NM_026653.2 → NP_080929.1 replication protein A 70 kDa DNA-binding subunit isoform 2

See identical proteins and their annotated locations for NP_080929.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The resulting isoform (2) lacks an alternate segment, compared to isoform 1.

Source sequence(s)

AK148035, BE981198, CJ078143, CJ086677

Consensus CDS

CCDS25044.1

UniProtKB/Swiss-Prot

Q3TEJ8, Q8VEE4

UniProtKB/TrEMBL

Q3U8B3

Related

ENSMUSP00000090585.6, ENSMUST00000092907.12

Conserved Domains (5) summary

cd04474
Location:195 → 297

RPA1_DBD_A; RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which ...

cd04475
Location:325 → 425

RPA1_DBD_B; RPA1_DBD_B: A subfamily of OB folds corresponding to the third OB fold, the ssDNA-binding domain (DBD)-B, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which ...

TIGR00617
Location:2 → 621

rpa1; replication factor-a protein 1 (rpa1)

pfam04057
Location:5 → 104

Rep-A_N; Replication factor-A protein 1, N-terminal domain

pfam08646
Location:470 → 615

Rep_fac-A_C; Replication factor-A C terminal 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_000077.7 Reference GRCm39 C57BL/6J

Range

75191085..75239478 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006534051.3 → XP_006534114.1 replication protein A 70 kDa DNA-binding subunit isoform X1

UniProtKB/TrEMBL

Q3U8B3

Conserved Domains (1) summary

TIGR00617
Location:2 → 650

rpa1; replication factor-a protein 1 (rpa1)