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    Smg6 [ Drosophila melanogaster ]

    Gene ID: 42994, updated on 10-May-2012
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    Summary

    Official Symbol
    Smg6provided by Flybase
    Primary source
    FLYBASE:FBgn0039260
    Locus tag
    Dmel_CG6369
    Gene type
    protein coding
    RNA name
    Smg6
    RefSeq status
    REVIEWED
    Organism
    Drosophila melanogaster
    Lineage
    Eukaryota; Metazoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
    Also known as
    CG6369; Dmel\CG6369; dSMG6; SMG6
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    Genomic context

    Location :
    96B17-96B17
    Sequence :
    Chromosome: 3R; NT_033777.2 (20855145..20859177, complement)
    See Smg6 in Epigenomics, MapViewer

    Chromosome 3R - NT_033777.2Genomic Context describing neighboring genes Neighboring gene beta-4-galactosyltransferase 7 Neighboring gene CG11781 gene product from transcript CG11781-RA Neighboring gene Hormone receptor-like in 96 Neighboring gene CG6422 gene product from transcript CG6422-RA Neighboring gene CG31115 gene product from transcript CG31115-RB Neighboring gene CG42283 gene product from transcript CG42283-RB Neighboring gene baiser

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. The exon junction complex differentially marks spliced junctions. Saulière J, et al. Nat Struct Mol Biol, 2010 Oct. PMID 20818392.
    2. SMG6 is the catalytic endonuclease that cleaves mRNAs containing nonsense codons in metazoan. Huntzinger E, et al. RNA, 2008 Dec. PMID 18974281.
    3. Sequence finishing and mapping of Drosophila melanogaster heterochromatin. Hoskins RA, et al. Science, 2007 Jun 15. PMID 17569867.
    4. The Release 5.1 annotation of Drosophila melanogaster heterochromatin. Smith CD, et al. Science, 2007 Jun 15. PMID 17569856.
    5. P-body formation is a consequence, not the cause, of RNA-mediated gene silencing. Eulalio A, et al. Mol Cell Biol, 2007 Jun. PMID 17403906.

    See all (18) citations in PubMed

    See citations in PubMed for homologs of this gene provided by HomoloGene

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. SMG6 is a conserved endonuclease that degrades mRNAs terminating translation prematurely in metazoa
      Title: SMG6 is the catalytic endonuclease that cleaves mRNAs containing nonsense codons in metazoan.
    Submit: New GeneRIF Correction
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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    BioGRID:67915 BioGRID:59980 CG8965    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:61365 Cul-2    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:60913 Cul-3    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:68286 Doa    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:59745 Mad    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:68794 Pak    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:67158 ald    BioGRID  PubMed Two-hybrid 
    BioGRID:67915 BioGRID:61534 cos    BioGRID  PubMed Two-hybrid 
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    General gene information

    Homology

    • Homologs of the Smg6 gene: The Smg6 gene is conserved in human, chimpanzee, , dog, cow, mouse, rat, chicken, and zebrafish.

    Pathways from BioSystems

    • mRNA surveillance pathway, organism-specific biosystem (from KEGG)
      mRNA surveillance pathway, organism-specific biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...
    • mRNA surveillance pathway, conserved biosystem (from KEGG)
      mRNA surveillance pathway, conserved biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    ribonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    NOT RNA interference IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    NOT gene silencing by miRNA IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
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    General protein information

    Preferred Names
    CG6369 gene product from transcript CG6369-RA
    Names
    CG6369-PA
    Smg6
    Smg6-PA
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    NCBI Reference Sequences (RefSeq)

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NT_033777.2

      Range
      20855145..20859177, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_143064.1 → NP_651321.1  Smg6 [Drosophila melanogaster]

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VBZ6
      Related
      FBpp0084171, FBtr0084796
      Conserved Domains (3) summary
      cd09885
      Location:767 – 941
      Blast Score: 623
      PIN_Smg6; PIN domain of human telomerase-binding protein EST1, Smg6, and other similar eukaryotic homologs.
      pfam10373
      Location:310 – 638
      Blast Score: 544
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:218 – 305
      Blast Score: 181
      EST1; Telomerase activating protein Est1
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AE014297.2 AAF56380.2
    mRNA BT023791.1 AAZ41800.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9VBZ6.1 GenPept
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    Additional Links

    Gene LinkOut

      Supplemental Content