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    Exosc3 exosome component 3 [ Mus musculus (house mouse) ]

    Gene ID: 66362, updated on 31-Jan-2019

    Summary

    Official Symbol
    Exosc3provided by MGI
    Official Full Name
    exosome component 3provided by MGI
    Primary source
    MGI:MGI:1913612
    See related
    Ensembl:ENSMUSG00000028322
    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
    Rrp40; AI593501; 2310005D06Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 24.3), liver E14 (RPKM 19.9) and 28 other tissues See more
    Orthologs

    Genomic context

    See Exosc3 in Genome Data Viewer
    Location:
    4; 4 B1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 4 NC_000070.6 (45316629..45320603, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (45329501..45333475, complement)

    Chromosome 4 - NC_000070.6Genomic Context describing neighboring genes Neighboring gene FERM and PDZ domain containing 1 Neighboring gene FERM and PDZ domain containing 1, opposite strand Neighboring gene tRNA methyltransferase 10B Neighboring gene predicted gene, 31017 Neighboring gene predicted gene 12585

    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

    Variation

    Alleles

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

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    nuclease activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    CUT catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    CUT catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    DNA deamination ISO
    Inferred from Sequence Orthology
    more info
     
    U4 snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay ISO
    Inferred from Sequence Orthology
    more info
     
    exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    isotype switching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nuclear polyadenylation-dependent rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear polyadenylation-dependent tRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    polyadenylation-dependent snoRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of isotype switching IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    rRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasmic exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasmic exosome (RNase complex) ISO
    Inferred from Sequence Orthology
    more info
     
    exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exosome (RNase complex) ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nuclear exosome (RNase complex) ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    transcriptionally active chromatin ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    exosome complex component RRP40
    Names
    exosome complex exonuclease RRP40
    ribosomal RNA-processing protein 40

    NCBI Reference Sequences (RefSeq)

    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_001362788.1NP_001349717.1  exosome complex component RRP40 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL772285
      Conserved Domains (2) summary
      cd05790
      Location:22107
      S1_Rrp40; Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in ...
      pfam15985
      Location:111157
      KH_6; KH domain
    2. NM_025513.4NP_079789.1  exosome complex component RRP40 isoform 1

      See identical proteins and their annotated locations for NP_079789.1

      Status: VALIDATED

      Source sequence(s)
      AL772285
      Consensus CDS
      CCDS18136.1
      UniProtKB/Swiss-Prot
      Q7TQK4
      Related
      ENSMUSP00000030003.3, ENSMUST00000030003.9
      Conserved Domains (2) summary
      cd05790
      Location:107192
      S1_Rrp40; S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation ...
      pfam15985
      Location:196242
      KH_6; KH domain

    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_000070.6 Reference GRCm38.p4 C57BL/6J

      Range
      45316629..45320603 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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