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    Rrp4 [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 37731, updated on 10-May-2024

    Summary

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    Official Symbol
    Rrp4provided by FlyBase
    Primary source
    FLYBASE:FBgn0034879
    Locus tag
    Dmel_CG3931
    See related
    AllianceGenome:FB:FBgn0034879
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Drosophila melanogaster
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
    Also known as
    CG3931; Dmel\CG3931; dRrp4; rrp4; RRP4
    Summary
    Predicted to enable RNA binding activity. Involved in defense response to virus and regulation of gene expression. Located in cytoplasm and nuclear lamina. Part of nuclear exosome (RNase complex). Orthologous to human EXOSC2 (exosome component 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See Rrp4 in Genome Data Viewer
    Location:
    59E3-59E3; 2-103 cM
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2R NT_033778.4 (23555018..23556217, complement)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2R NT_033778.3 (19442541..19443740, complement)

    Chromosome 2R - NT_033778.4Genomic Context describing neighboring genes Neighboring gene levy Neighboring gene pita Neighboring gene Death caspase-1 Neighboring gene Integrin alphaPS5 subunit Neighboring gene Phosphatidylinositol 3-kinase 59F Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. RRP6/EXOSC10 is required for the repair of DNA double-strand breaks by homologous recombination. Marin-Vicente C, et al. J Cell Sci, 2015 Mar 15. PMID 25632158
    2. Rrp6 is recruited to transcribed genes and accompanies the spliced mRNA to the nuclear pore. Hessle V, et al. RNA, 2012 Aug. PMID 22745224, Free PMC Article
    3. Dis3- and exosome subunit-responsive 3' mRNA instability elements. Kiss DL, et al. Biochem Biophys Res Commun, 2012 Jul 6. PMID 22668878, Free PMC Article
    4. Nonsense-mediated messenger RNA decay is initiated by endonucleolytic cleavage in Drosophila. Gatfield D, et al. Nature, 2004 Jun 3. PMID 15175755
    5. Differential distribution of exosome subunits at the nuclear lamina and in cytoplasmic foci. Graham AC, et al. Mol Biol Cell, 2006 Mar. PMID 16407406, Free PMC Article

    See all (52) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding 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
    		  
    involved_in TRAMP-dependent tRNA surveillance pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in U4 snRNA 3'-end processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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
    		  
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay 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 regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of cytoplasmic exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of exosome (RNase complex) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    part_of nuclear exosome (RNase complex) IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nuclear exosome (RNase complex) IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of nuclear exosome (RNase complex) ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    located_in nuclear lamina IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    Rrp4
    Names
    CG3931-PA
    CG3931-PB
    Rrp4-PA
    Rrp4-PB

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NT_033778.4 Reference assembly

      Range
      23555018..23556217 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_137963.2 → NP_611807.1  Rrp4, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_611807.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8MSZ7, Q9W1M9
      Related
      FBpp0072020
      Conserved Domains (2) summary
      COG1097
      Location:27 → 209
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cl00098
      Location:172 → 290
      KH-I; K homology (KH) RNA-binding domain, type I

    2. NM_001299842.1 → NP_001286771.1  Rrp4, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001286771.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q8MSZ7, Q9W1M9
      Conserved Domains (2) summary
      COG1097
      Location:27 → 209
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cl00098
      Location:172 → 290
      KH-I; K homology (KH) RNA-binding domain, type I
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8MSZ7 Q8MSZ7
    Q9W1M9 Q9W1M9

    Gene LinkOut

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