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    Csl4 Csl4 [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 34548, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Csl4provided by FlyBase
    Official Full Name
    Csl4provided by FlyBase
    Primary source
    FLYBASE:FBgn0032346
    Locus tag
    Dmel_CG6249
    See related
    AllianceGenome:FB:FBgn0032346
    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
    CG6249; csl4; CSL4; dCsl4; Dmel\CG6249
    Summary
    Predicted to enable RNA binding activity. Involved in regulation of gene expression. Located in cytoplasm and euchromatin. Part of nuclear exosome (RNase complex). Is expressed in several structures, including anterior endoderm; anterior endoderm anlage; embryonic/larval midgut; embryonic/larval midgut primordium; and mesoderm. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 1F. Orthologous to human EXOSC1 (exosome component 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See Csl4 in Genome Data Viewer
    Location:
    32D4-32D4; 2-44 cM
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2L NT_033779.5 (11122574..11123567, complement)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2L NT_033779.4 (11122574..11123567, complement)

    Chromosome 2L - NT_033779.5Genomic Context describing neighboring genes Neighboring gene Gustatory receptor 32a Neighboring gene uncharacterized protein Neighboring gene Dynein axonemal assembly factor 4 Neighboring gene Nucleoporin 160kD Neighboring gene Replication factor C 38kD subunit 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. Genetic dissection of Nucleoporin 160 (Nup160), a gene involved in multiple phenotypes of reproductive isolation in Drosophila. Maehara K, et al. Genes Genet Syst, 2012. PMID 22820383
    2. Nonsense-mediated messenger RNA decay is initiated by endonucleolytic cleavage in Drosophila. Gatfield D, et al. Nature, 2004 Jun 3. PMID 15175755
    3. 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
    4. An enemy within: fly reconnaissance deploys an endonuclease to destroy nonsense-containing mRNA. Valencia-Sánchez MA, et al. Trends Cell Biol, 2004 Nov. PMID 15519847
    5. Genome-wide analysis reveals distinct substrate specificities of Rrp6, Dis3, and core exosome subunits. Kiss DL, et al. RNA, 2010 Apr. PMID 20185544, Free PMC Article

    See all (44) 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in euchromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of exosome (RNase complex) IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 

    General protein information

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    Preferred Names
    Csl4
    Names
    CG6249-PA
    Csl4-PA

    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_033779.5 Reference assembly

      Range
      11122574..11123567 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_135648.2 → NP_609492.1  Csl4 [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_609492.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VKJ4
      Related
      FBpp0079813
      Conserved Domains (3) summary
      COG1096
      Location:10 → 193
      Csl4; Exosome complex RNA-binding protein Csl4, contains S1 and Zn-ribbon domains [Translation, ribosomal structure and biogenesis]
      cd05791
      Location:66 → 156
      S1_CSL4; S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation ...
      pfam14382
      Location:10 → 47
      ECR1_N; Exosome complex exonuclease RRP4 N-terminal region
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9VKJ4 Q9VKJ4

    Gene LinkOut

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