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    upSET upSET [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 39551, updated on 9-Dec-2024

    Summary

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    Official Symbol
    upSETprovided by FlyBase
    Official Full Name
    upSETprovided by FlyBase
    Primary source
    FLYBASE:FBgn0036398
    Locus tag
    Dmel_CG9007
    See related
    AllianceGenome:FB:FBgn0036398
    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
    CG9007; Dmel\CG9007; Upset; UpSET
    Summary
    Enables chromatin binding activity and methylated histone binding activity. Involved in negative regulation of gene expression, epigenetic. Located in euchromatin; nucleus; and polytene chromosome. Is expressed in organism; ovariole; and spermatozoon. Human ortholog(s) of this gene implicated in autistic disorder; autosomal dominant intellectual developmental disorder 23; and cervical cancer. Orthologous to several human genes including SETD5 (SET domain containing 5). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See upSET in Genome Data Viewer
    Location:
    70C11-70C12; 3-41 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3L NT_037436.4 (14002127..14020148)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3L NT_037436.3 (13995227..14013248)

    Chromosome 3L - NT_037436.4Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene Nitrogen permease regulator-like 3 Neighboring gene PAX transcription activation domain interacting protein Neighboring gene endosulfine 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. upSET, the Drosophila homologue of SET3, Is Required for Viability and the Proper Balance of Active and Repressive Chromatin Marks. McElroy KA, et al. G3 (Bethesda), 2017 Feb 9. PMID 28064188, Free PMC Article
    2. Molecular basis for chromatin binding and regulation of MLL5. Ali M, et al. Proc Natl Acad Sci U S A, 2013 Jul 9. PMID 23798402, Free PMC Article
    3. The P-element-induced silencing effect of KP transposons is dose dependent in Drosophila melanogaster. Sameny A, et al. Genome, 2011 Sep. PMID 21888571
    4. Streamlined discovery of cross-linked chromatin complexes and associated histone modifications by mass spectrometry. Zee BM, et al. Proc Natl Acad Sci U S A, 2016 Feb 16. PMID 26831069, Free PMC Article
    5. Functional assessment of the "two-hit" model for neurodevelopmental defects in Drosophila and X. laevis. Pizzo L, et al. PLoS Genet, 2021 Apr. PMID 33819264, Free PMC Article

    See all (46) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our findings support a critical role for UpSET in maintaining heterochromatin, perhaps by delimiting the active chromatin environment.
      Title: upSET, the Drosophila homologue of SET3, Is Required for Viability and the Proper Balance of Active and Repressive Chromatin Marks.
    2. upSET(CG9007) encodes an inactive SET domain most closely related to the mammalian protein MLL5. UpSET interacts with HDAC complexes to restrict active histone marks to promoter and genic regions.
      Title: UpSET recruits HDAC complexes and restricts chromatin accessibility and acetylation at promoter regions.
    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
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT enables histone methyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methylated histone binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of Rpd3L-Expanded complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Set3 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in euchromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in polytene chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    upSET
    Names
    CG9007-PA
    CG9007-PB
    upSET-PA
    upSET-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_037436.4 Reference assembly

      Range
      14002127..14020148
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001274890.1 → NP_001261819.1  upSET, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001261819.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VUB5
      Conserved Domains (2) summary
      smart00317
      Location:1221 → 1273
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      cd15550
      Location:856 → 899
      PHD_MLL5; PHD finger found in mixed lineage leukemia 5 (MLL5)

    2. NM_140424.2 → NP_648681.1  upSET, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_648681.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VUB5
      Related
      FBpp0075510
      Conserved Domains (2) summary
      smart00317
      Location:1221 → 1273
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      cd15550
      Location:856 → 899
      PHD_MLL5; PHD finger found in mixed lineage leukemia 5 (MLL5)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8T0K2 Q8T0K2
    Q9VUB5 Q9VUB5

    Gene LinkOut

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

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