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Rpain RPA interacting protein [ Mus musculus (house mouse) ]

Gene ID: 69723, updated on 2-Nov-2024

Summary

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Official Symbol
Rpainprovided by MGI
Official Full Name
RPA interacting proteinprovided by MGI
Primary source
MGI:MGI:1916973
See related
Ensembl:ENSMUSG00000018449 AllianceGenome:MGI:1916973
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
Rip; 2400006N03Rik
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in protein import into nucleus. Predicted to act upstream of or within DNA metabolic process and response to UV. Predicted to be located in PML body; cytoplasm; and fibrillar center. Predicted to be active in nucleus. Is expressed in several structures, including cerebral cortex ventricular layer; egg cylinder; and oocyte. Orthologous to human RPAIN (RPA interacting protein). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in liver E14 (RPKM 17.5), testis adult (RPKM 16.8) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Rpain in Genome Data Viewer
Location:
11 B4; 11 43.21 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (70860403..70868759)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (70970130..70977933)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene rabaptin, RAB GTPase binding effector protein 1 Neighboring gene ribosomal protein L23A, pseudogene 2 Neighboring gene predicted gene 12322 Neighboring gene nucleoporin 88 Neighboring gene STARR-seq mESC enhancer starr_29882 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:70783671-70783780 Neighboring gene complement component 1, q subcomponent binding protein Neighboring gene DEAH-box helicase 33 Neighboring gene STARR-positive B cell enhancer ABC_E2359 Neighboring gene predicted gene, 22297 Neighboring gene STARR-positive B cell enhancer ABC_E256 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:70833281-70833468 Neighboring gene Der1-like domain family, member 2 Neighboring gene MIS12 kinetochore complex component

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Species-specific variation of RPA-interacting protein (RIP) splice isoforms. Kim K, et al. BMB Rep, 2009 Jan 31. PMID 19192389
  2. Sumoylation of the novel protein hRIP{beta} is involved in replication protein A deposition in PML nuclear bodies. Park J, et al. Mol Cell Biol, 2005 Sep. PMID 16135809, Free PMC Article
  3. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
  4. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article
  5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The alternative splicing of RIPalpha in the Drosophila, Xenopus, and mouse system, was examined.
    Title: Species-specific variation of RPA-interacting protein (RIP) splice isoforms.
Submit: New GeneRIF Correction

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA recombination ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within DNA repair ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within DNA-templated DNA replication ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein import into nucleus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within response to UV ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in PML body ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm 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 nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
RPA-interacting protein
Names
RPA interacting protein delta 2
RPA interacting protein epsilon

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)

  1. NM_001252413.2 → NP_001239342.1  RPA-interacting protein isoform 3

    See identical proteins and their annotated locations for NP_001239342.1

    Status: VALIDATED

    Source sequence(s)
    AL596136, BC047996, BY576068, CB588111, DQ810269
    Consensus CDS
    CCDS56791.1
    UniProtKB/TrEMBL
    Q0PL81, Q0PL82
    Related
    ENSMUSP00000127315.2, ENSMUST00000167509.2
    Conserved Domains (3) summary
    pfam14766
    Location:8 → 46
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:59 → 123
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137 → 164
    RPA_interact_C; Replication protein A interacting C-terminal

  2. NM_001252414.2 → NP_001239343.1  RPA-interacting protein isoform 4

    See identical proteins and their annotated locations for NP_001239343.1

    Status: VALIDATED

    Source sequence(s)
    AL596136, BC047996, BY576068, CB588111, DQ810271
    Consensus CDS
    CCDS56792.1
    UniProtKB/TrEMBL
    Q0PL79, Q0PL80
    Related
    ENSMUSP00000128903.2, ENSMUST00000169965.8
    Conserved Domains (1) summary
    pfam14766
    Location:8 → 46
    RPA_interact_N; Replication protein A interacting N-terminal

  3. NM_001252415.2 → NP_001239344.1  RPA-interacting protein isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL596136, BC047996, BY576068, CB588111, DQ810268
    Consensus CDS
    CCDS56790.1
    UniProtKB/TrEMBL
    J3QN46, Q0PL82
    Related
    ENSMUSP00000136592.2, ENSMUST00000178822.8
    Conserved Domains (3) summary
    pfam14766
    Location:8 → 46
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:59 → 123
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137 → 165
    RPA_interact_C; Replication protein A interacting C-terminal

  4. NM_027186.3 → NP_081462.1  RPA-interacting protein isoform 1

    See identical proteins and their annotated locations for NP_081462.1

    Status: VALIDATED

    Source sequence(s)
    AK010289, AL596136, BC047996, BY576068, CB588111
    Consensus CDS
    CCDS24969.1
    UniProtKB/Swiss-Prot
    Q9CWY9
    UniProtKB/TrEMBL
    Q0PL83
    Related
    ENSMUSP00000018593.4, ENSMUST00000018593.10
    Conserved Domains (3) summary
    pfam14766
    Location:8 → 46
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:59 → 123
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137 → 217
    RPA_interact_C; Replication protein A interacting C-terminal

RNA

  1. NR_156443.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL596136

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
    70860403..70868759
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_003949500.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CWY9.1 GenPept UniProtKB/Swiss-Prot:Q9CWY9

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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