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upSET upSET [ Drosophila melanogaster (fruit fly) ]

Gene ID: 39551, updated on 4-Jan-2025

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, Jan 2025]
Orthologs
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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

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