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    Exosc5 exosome component 5 [ Mus musculus (house mouse) ]

    Gene ID: 27998, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Exosc5provided by MGI
    Official Full Name
    exosome component 5provided by MGI
    Primary source
    MGI:MGI:107889
    See related
    Ensembl:ENSMUSG00000061286 AllianceGenome:MGI:107889
    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
    D7Wsu180e
    Summary
    Predicted to enable RNA binding activity. Acts upstream of or within RNA catabolic process. Predicted to be located in cytosol; euchromatin; and nucleoplasm. Predicted to be part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Predicted to be active in nucleolus. Is expressed in several structures, including cerebral cortex; early conceptus; gonad; liver; and muscle tissue. Orthologous to human EXOSC5 (exosome component 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 168.2), adrenal adult (RPKM 45.2) and 23 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Exosc5 in Genome Data Viewer
    Location:
    7 A3; 7 13.96 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (25358578..25367457)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (25659153..25668032)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 57782 Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 8 Neighboring gene branched chain ketoacid dehydrogenase E1, alpha polypeptide Neighboring gene STARR-positive B cell enhancer ABC_E8156 Neighboring gene STARR-positive B cell enhancer ABC_E10430 Neighboring gene STARR-seq mESC enhancer starr_18309 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:26443819-26444002 Neighboring gene STARR-positive B cell enhancer ABC_E696 Neighboring gene transmembrane protein 91 Neighboring gene STARR-positive B cell enhancer ABC_E9022 Neighboring gene STARR-positive B cell enhancer ABC_E6524 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:26466931-26467040 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:26468633-26468786 Neighboring gene B9 protein domain 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
    • 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. Antisense RNA polymerase II divergent transcripts are P-TEFb dependent and substrates for the RNA exosome. Flynn RA, et al. Proc Natl Acad Sci U S A, 2011 Jun 28. PMID 21670248, Free PMC Article
    2. Exosome complex components 1 and 2 are vital for early mammalian development. Srinivasan S, et al. Gene Expr Patterns, 2024 Mar. PMID 37940010,
    3. Tissue-specific expression and mapping of the Cox7ah gene in mouse. Jaradat SA, et al. Genomics, 1998 May 1. PMID 9615220
    4. Post-transcriptional regulation by the exosome complex is required for cell survival and forebrain development via repression of P53 signaling. Ulmke PA, et al. Development, 2021 Feb 8. PMID 33462115, Free PMC Article
    5. Cytoplasmic aggregation of DDX1 in developing embryos: Early embryonic lethality associated with Ddx1 knockout. Hildebrandt MR, et al. Dev Biol, 2019 Nov 15. PMID 31330130

    See all (29) 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)
    • Gene trapped (1) 

    Pathways from PubChem

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    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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA deamination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA deamination ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within RNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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
    		  
    acts_upstream_of_or_within defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear mRNA surveillance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in poly(A)-dependent snoRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of cytoplasmic exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    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 IEA
    Inferred from Electronic Annotation
    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) ISS
    Inferred from Sequence or Structural Similarity
    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
    		  
    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 
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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

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    Preferred Names
    exosome complex component RRP46
    Names
    exosome complex exonuclease RRP46
    ribosomal RNA-processing protein 46

    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_138586.3 → NP_613052.1  exosome complex component RRP46

      See identical proteins and their annotated locations for NP_613052.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the protein-coding transcript.
      Source sequence(s)
      AK006475, BB856072, BE854983, BY198385
      Consensus CDS
      CCDS20990.1
      UniProtKB/Swiss-Prot
      Q8K1J2, Q9CRA8
      UniProtKB/TrEMBL
      Q3U2K4
      Related
      ENSMUSP00000078580.7, ENSMUST00000079634.8
      Conserved Domains (2) summary
      TIGR02065
      Location:11 → 232
      ECX1; archaeal exosome-like complex exonuclease 1
      cd11372
      Location:28 → 225
      RNase_PH_RRP46; RRP46 subunit of eukaryotic exosome

    RNA

    1. NR_104358.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice junction at the 5' end of an exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC162614, AK007372, BB856072, BE854983, BY196593

    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
      25358578..25367457
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CRA8.1 GenPept UniProtKB/Swiss-Prot:Q9CRA8

    Gene LinkOut

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

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