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    cuff cutoff [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 36269, updated on 9-Dec-2024

    Summary

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    Official Symbol
    cuffprovided by FlyBase
    Official Full Name
    cutoffprovided by FlyBase
    Primary source
    FLYBASE:FBgn0260932
    Locus tag
    Dmel_CG13190
    See related
    AllianceGenome:FB:FBgn0260932
    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
    CG13190; Cuff; CUFF; Dmel\CG13190; mel-cuff
    Summary
    Enables piRNA cluster binding activity. Involved in several processes, including RNA metabolic process; oogenesis; and positive regulation of DNA-templated transcription. Located in nucleus and perinuclear region of cytoplasm. Orthologous to human DXO (decapping exoribonuclease). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See cuff in Genome Data Viewer
    Location:
    48C5-48C5; 2-65 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2R NT_033778.4 (11886067..11887603)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2R NT_033778.3 (7773572..7775108)

    Chromosome 2R - NT_033778.4Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene uncharacterized protein Neighboring gene ncRNA Neighboring gene Endoplasmic reticulum p60 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 Neighboring gene Microcephalin Neighboring gene Zinc/iron regulated transporter-related protein 48C

    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. Protein-Protein Interactions Shape Genomic Autoimmunity in the Adaptively Evolving Rhino-Deadlock-Cutoff Complex. Kelleher ES. Genome Biol Evol, 2021 Jul 6. PMID 34115120, Free PMC Article
    2. Induction of Transposon Silencing in the Drosophila Germline. Ryazansky SS, et al. Biochemistry (Mosc), 2017 May. PMID 28601066
    3. Adaptive Evolution Targets a piRNA Precursor Transcription Network. Parhad SS, et al. Cell Rep, 2020 Feb 25. PMID 32101744, Free PMC Article
    4. Paramutation in Drosophila Requires Both Nuclear and Cytoplasmic Actors of the piRNA Pathway and Induces Cis-spreading of piRNA Production. Hermant C, et al. Genetics, 2015 Dec. PMID 26482790, Free PMC Article
    5. Mutations to the piRNA pathway component aubergine enhance meiotic drive of segregation distorter in Drosophila melanogaster. Gell SL, et al. Genetics, 2013 Mar. PMID 23267055, Free PMC Article

    See all (81) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Results confirm that Cutoff is involved in the transcriptional regulation of piRNA clusters and in the repression of transposable elements in germ cells. Surprisingly, however, Cutoff is found enriched at and affects the expression of other noncoding RNAs, including spliceosomal RNAs and small nucleolar RNAs. Finally, mutations in Cutoff result in the deregulation of hundreds of protein-coding genes in germ cells.
      Title: Integrative analysis unveils new functions for the Drosophila Cutoff protein in noncoding RNA biogenesis and gene regulation.
    2. Cutoff suppresses RNA polymerase II termination to ensure expression of piRNA precursors.
      Title: Cutoff Suppresses RNA Polymerase II Termination to Ensure Expression of piRNA Precursors.
    3. Analysis of piRNA clusters in the Drosophila ovary shows that hallmarks of RNA Polymerase II (Pol II) transcription are fundamentally different at uni-strand versus dual-strand clusters. Genome-wide, piRNA production from dual-strand clusters requires the RDC complex consisting of Rhi, Deadlock (Del), and Cuff.
      Title: The rhino-deadlock-cutoff complex licenses noncanonical transcription of dual-strand piRNA clusters in Drosophila.
    4. results unveil a link between Cuff activity, heterochromatin assembly and piRNA cluster expression, which is critical for stem-cell and germ-cell development in Drosophila
      Title: The Cutoff protein regulates piRNA cluster expression and piRNA production in the Drosophila germline.
    Submit: New GeneRIF Correction

    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
    NOT enables mRNA 5'-diphosphatase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables piRNA cluster binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in NAD-cap decapping IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in P granule organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in dorsal/ventral pattern formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in germarium-derived female germ-line cyst formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in oocyte karyosome formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in oogenesis HMP PubMed 
    involved_in ovarian fusome organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of piRNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of snRNA transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in siRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in snoRNA transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cutoff
    Names
    CG13190-PA
    cuff-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_033778.4 Reference assembly

      Range
      11886067..11887603
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_136865.3 → NP_610709.1  cutoff [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_610709.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q29QR5, Q9V629
      Related
      FBpp0087141
      Conserved Domains (1) summary
      pfam08652
      Location:257 → 284
      RAI1; RAI1 like PD-(D/E)XK nuclease
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9V629.1 Q9V629

    Gene LinkOut

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

    Other Literature Sources
    Chemical Information
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