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    Rif1 replication timing regulatory factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 51869, updated on 5-Nov-2017
    Official Symbol
    Rif1provided by MGI
    Official Full Name
    replication timing regulatory factor 1provided by MGI
    Primary source
    MGI:MGI:1098622
    See related
    Ensembl:ENSMUSG00000036202 Vega:OTTMUSG00000012437
    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
    AU016181; AW549474; D2Ertd145e; 5730435J01Rik; 6530403D07Rik
    Orthologs
    Location:
    2 C1.1; 2 29.98 cM
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (52072811..52126769)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (51928357..51977901)

    Chromosome 2 - NC_000068.7Genomic Context describing neighboring genes Neighboring gene N-myc (and STAT) interactor Neighboring gene tumor necrosis factor alpha induced protein 6 Neighboring gene nebulin Neighboring gene RIKEN cDNA 4930573O16 gene Neighboring gene predicted gene 13521

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    cellular response to DNA damage stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to leukemia inhibitory factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chromatin silencing at telomere IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of double-strand break repair via homologous recombination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription from RNA polymerase II promoter IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of double-strand break repair via nonhomologous end joining IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of histone H3-K9 methylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of isotype switching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    telomere maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    telomere maintenance in response to DNA damage ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    chromosome IEA
    Inferred from Electronic Annotation
    more info
     
    chromosome, telomeric region IDA
    Inferred from Direct Assay
    more info
    PubMed 
    condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    female pronucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    male pronucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear chromatin IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    site of double-strand break IDA
    Inferred from Direct Assay
    more info
    PubMed 
    site of double-strand break IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
     
    spindle midzone ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    telomere-associated protein RIF1
    Names
    Rap1 interacting factor 1 homolog
    mRif1
    rap1-interacting factor 1 homolog

    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_001355414.1NP_001342343.1  telomere-associated protein RIF1 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AL844571, AL929138
      Conserved Domains (1) summary
      pfam12231
      Location:25368
      Rif1_N; Rap1-interacting factor 1 N terminal
    2. NM_001355415.1NP_001342344.1  telomere-associated protein RIF1 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AL844571, AL929138
      Conserved Domains (1) summary
      pfam12231
      Location:25361
      Rif1_N; Rap1-interacting factor 1 N terminal
    3. NM_175238.6NP_780447.4  telomere-associated protein RIF1 isoform a

      See identical proteins and their annotated locations for NP_780447.4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AL844571, AL929138
      Consensus CDS
      CCDS50583.1
      UniProtKB/Swiss-Prot
      Q6PR54
      Related
      ENSMUSP00000108313.2, ENSMUST00000112693.8
      Conserved Domains (1) summary
      pfam12231
      Location:25368
      Rif1_N; Rap1-interacting factor 1 N terminal

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      52072811..52126769
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006498177.2XP_006498240.1  telomere-associated protein RIF1 isoform X1

      UniProtKB/Swiss-Prot
      Q6PR54
      Conserved Domains (1) summary
      pfam12231
      Location:25361
      Rif1_N; Rap1-interacting factor 1 N terminal
    2. XM_011239136.1XP_011237438.1  telomere-associated protein RIF1 isoform X3

      UniProtKB/Swiss-Prot
      Q6PR54
      Conserved Domains (1) summary
      pfam12231
      Location:25361
      Rif1_N; Rap1-interacting factor 1 N terminal
    3. XM_011239135.1XP_011237437.1  telomere-associated protein RIF1 isoform X2

      Conserved Domains (1) summary
      pfam12231
      Location:25361
      Rif1_N; Rap1-interacting factor 1 N terminal
    4. XM_006498179.2XP_006498242.1  telomere-associated protein RIF1 isoform X4

      Conserved Domains (1) summary
      pfam12231
      Location:1226
      Rif1_N; Rap1-interacting factor 1 N terminal
    5. XM_011239137.2XP_011237439.1  telomere-associated protein RIF1 isoform X5

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