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    Rnf169 ring finger protein 169 [ Mus musculus (house mouse) ]

    Gene ID: 108937, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Rnf169provided by MGI
    Official Full Name
    ring finger protein 169provided by MGI
    Primary source
    MGI:MGI:1920257
    See related
    Ensembl:ENSMUSG00000058761 AllianceGenome:MGI:1920257
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2900057K09Rik
    Summary
    Predicted to enable modification-dependent protein binding activity; nucleosome binding activity; and ubiquitin-protein transferase activity. Predicted to be involved in double-strand break repair via homologous recombination and negative regulation of double-strand break repair. Predicted to be located in cytosol; nuclear body; and nucleolus. Predicted to be active in nucleus and site of double-strand break. Is expressed in nervous system and retina. Orthologous to human RNF169 (ring finger protein 169). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 1.9), CNS E11.5 (RPKM 1.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Rnf169 in Genome Data Viewer
    Location:
    7 E2; 7 54.22 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (99569461..99630537, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (99920254..99981330, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene signal peptidase complex subunit 2 homolog (S. cerevisiae) Neighboring gene STARR-positive B cell enhancer ABC_E1347 Neighboring gene X-ray radiation resistance associated 1 Neighboring gene predicted gene, 38405 Neighboring gene predicted gene 5115 Neighboring gene U2 small nuclear RNA auxiliary factor 1-like 4 pseudogene Neighboring gene STARR-seq mESC enhancer starr_19665 Neighboring gene SET translocation pseudogene Neighboring gene chordin-like 2

    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. Tagging genes with cassette-exchange sites. Cobellis G, et al. Nucleic Acids Res, 2005 Mar 1. PMID 15741177, Free PMC Article
    2. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
    3. Genomic analysis of mouse retinal development. Blackshaw S, et al. PLoS Biol, 2004 Sep. PMID 15226823, Free PMC Article
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables K63-linked polyubiquitin modification-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables K63-linked polyubiquitin modification-dependent protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nucleosome binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-modified histone reader activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-modified histone reader activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase activity 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 chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in double-strand break repair via homologous recombination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of double-strand break repair ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in site of double-strand break IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase RNF169
    Names
    RING-type E3 ubiquitin transferase RNF169
    NP_780597.2
    XP_006507248.1
    XP_006507250.1
    XP_006507251.1
    XP_030097842.1

    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)

    1. NM_175388.3 → NP_780597.2  E3 ubiquitin-protein ligase RNF169

      See identical proteins and their annotated locations for NP_780597.2

      Status: PROVISIONAL

      Source sequence(s)
      AC113298
      Consensus CDS
      CCDS52322.1
      UniProtKB/Swiss-Prot
      E9Q7F2, Q69Z47
      Related
      ENSMUSP00000079631.4, ENSMUST00000080817.6
      Conserved Domains (1) summary
      pfam05142
      Location:76 → 143
      DUF702; Domain of unknown function (DUF702)

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      99569461..99630537 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006507185.4 → XP_006507248.1  E3 ubiquitin-protein ligase RNF169 isoform X1

      Conserved Domains (1) summary
      cd16551
      Location:90 → 127
      RING-HC_RNF169; RING finger, HC subclass, found in RING finger protein 169 (RNF169) and similar proteins

    2. XM_030241982.2 → XP_030097842.1  E3 ubiquitin-protein ligase RNF169 isoform X2

    3. XM_006507187.5 → XP_006507250.1  E3 ubiquitin-protein ligase RNF169 isoform X2

    4. XM_006507188.5 → XP_006507251.1  E3 ubiquitin-protein ligase RNF169 isoform X3

      Conserved Domains (2) summary
      cd00162
      Location:91 → 126
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      cl17238
      Location:90 → 127
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    E9Q7F2.1 GenPept UniProtKB/Swiss-Prot:E9Q7F2

    Gene LinkOut

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

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