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

    Gene ID: 68275, updated on 12-May-2024

    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, Apr 2022]
    Expression
    Ubiquitous expression in liver E14 (RPKM 24.0), liver E14.5 (RPKM 21.1) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Rpa1 in Genome Data Viewer
    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_000077.7Genomic Context describing neighboring genes Neighboring gene reticulon 4 receptor-like 1 Neighboring gene predicted gene, 35169 Neighboring gene predicted gene, 35117 Neighboring gene STARR-positive B cell enhancer ABC_E9826 Neighboring gene STARR-positive B cell enhancer ABC_E3972 Neighboring gene STARR-seq mESC enhancer starr_29990 Neighboring gene STARR-seq mESC enhancer starr_29991 Neighboring gene SET and MYND domain containing 4 Neighboring gene serine (or cysteine) peptidase inhibitor, clade F, member 1 Neighboring gene predicted gene, 35337

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (5)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    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
     
    acts_upstream_of_or_within DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    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 base-excision repair ISO
    Inferred from Sequence Orthology
    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 nucleotide-excision repair IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in nucleotide-excision repair ISO
    Inferred from Sequence Orthology
    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 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
     
    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
     
    is_active_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    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)

    NEW Try the new Transcript table

    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_001164223.1NP_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:216318
      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:346446
      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:2642
      rpa1; replication factor-a protein 1 (rpa1)
      pfam04057
      Location:5125
      Rep-A_N; Replication factor-A protein 1, N-terminal domain
      pfam08646
      Location:491636
      Rep_fac-A_C; Replication factor-A C terminal domain
    2. NM_026653.2NP_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:195297
      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:325425
      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:2621
      rpa1; replication factor-a protein 1 (rpa1)
      pfam04057
      Location:5104
      Rep-A_N; Replication factor-A protein 1, N-terminal domain
      pfam08646
      Location:470615
      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

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      75191085..75239478 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

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

      UniProtKB/TrEMBL
      Q3U8B3
      Conserved Domains (1) summary
      TIGR00617
      Location:2650
      rpa1; replication factor-a protein 1 (rpa1)