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

Gene ID: 66362, updated on 8-Dec-2022

Summary

Official Symbol
Exosc3provided by MGI
Official Full Name
exosome component 3provided by MGI
Primary source
MGI:MGI:1913612
See related
Ensembl:ENSMUSG00000028322 AllianceGenome:MGI:1913612
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; 2310005D06Rik
Summary
Predicted to enable RNA binding activity. Involved in isotype switching. Acts upstream of or within positive regulation of isotype switching. Predicted to be located in cytoplasm; nuclear lumen; and transcriptionally active chromatin. Predicted to be part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 1B. Orthologous to human EXOSC3 (exosome component 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 24.3), liver E14 (RPKM 19.9) and 28 other tissues See more
Orthologs
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Genomic context

See Exosc3 in Genome Data Viewer
Location:
4; 4 B1
Exon count:
4
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (45316613..45320616, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (45316613..45320616, complement)

Chromosome 4 - NC_000070.7Genomic 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 PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables exonuclease activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in CUT catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in CUT catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA deamination ISO
Inferred from Sequence Orthology
more info
 
involved_in RNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in RNA processing ISO
Inferred from Sequence Orthology
more info
 
involved_in U4 snRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in exonucleolytic catabolism of deadenylated mRNA IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in exonucleolytic catabolism of deadenylated mRNA ISO
Inferred from Sequence Orthology
more info
 
involved_in 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 
involved_in isotype switching IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nuclear polyadenylation-dependent rRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in nuclear polyadenylation-dependent tRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in polyadenylation-dependent snoRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within positive regulation of isotype switching IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in rRNA processing ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
part_of cytoplasmic exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of cytoplasmic exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
 
part_of cytoplasmic exosome (RNase complex) NAS
Non-traceable Author Statement
more info
PubMed 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in euchromatin ISO
Inferred from Sequence Orthology
more info
 
part_of exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
 
part_of exosome (RNase complex) NAS
Non-traceable Author Statement
more info
PubMed 
part_of nuclear exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of nuclear exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
 
part_of nuclear exosome (RNase complex) NAS
Non-traceable Author Statement
more info
PubMed 
part_of nucleolar exosome (RNase complex) NAS
Non-traceable Author Statement
more info
PubMed 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus 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)

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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_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, Q9CVW2
    Related
    ENSMUSP00000030003.4, ENSMUST00000030003.10
    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 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    45316613..45320616 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)