SET1 / YHR119W Overview
- Standard Name
- SET1 1
- Systematic Name
- YHR119W
- SGD ID
- SGD:S000001161
- Aliases
- YTX1 , KMT2 9
- Feature Type
- ORF , Verified
- Description
- Histone methyltransferase, subunit of the COMPASS (Set1C) complex; COMPASS methylates histone H3K4; Set1p-dependent H3K4 trimethylation recruits Nrd1p, allowing efficient termination of snoRNAs and cryptic unstable transcripts (CUTs) by Nrd1p-Nab3p-Sen1p pathway; modulates histone acetylation levels in promoter proximal regions to ensure efficient Nrd1p-dependent termination; required in transcriptional silencing near telomeres and at silent mating type loci; has a SET domain 2 3 4 5 6 7 8
- Name Description
- SET domain-containing 1
- Comparative Info
-
Sequence
The S. cerevisiae Reference Genome sequence is derived from laboratory strain S288C. Download DNA or protein sequence, view genomic context and coordinates. Click "Sequence Details" to view all sequence information for this locus, including that for other strains.
Analyze Sequence
S288C only
BLASTN | BLASTP | Design Primers | Restriction Fragment Map | Restriction Fragment Sizes | Six-Frame Translation
S288C vs. other species
BLASTN vs. fungi | BLASTP at NCBI | BLASTP vs. fungi
S288C vs. other strains
Protein
Basic sequence-derived (length, molecular weight, isoelectric point) and experimentally-determined (median abundance, median absolute deviation) protein information. Click "Protein Details" for further information about the protein such as half-life, abundance, domains, domains shared with other proteins, protein sequence retrieval for various strains, physico-chemical properties, protein modification sites, and external identifiers for the protein.
- Length (a.a.)
- 1080
- Mol. Weight (Da)
- 123937.2
- Isoelectric Point
- 9.36
- Median Abundance (molecules/cell)
- 981 +/- 720
- Half-life (hr)
- 4.6
Alleles
Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results. Click "YeastMine" to view all alleles in YeastMine.
View all SET1 alleles in SGD search | YeastMine
Gene Ontology
GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. SGD has manually curated and high-throughput GO Annotations, both derived from the literature, as well as computational, or predicted, annotations. Click "Gene Ontology Details" to view all GO information and evidence for this locus as well as biological processes it shares with other genes.
- Summary
- Subunit of the Set1C/COMPASS complex, contributes to methyltransferase activity that methylates histone H3 on lysine at position 4 (H3-K4 specific methylation); involved in chromatin silencing at telomeres and at mating type loci; localized in nucleus
View computational annotations
Molecular Function
- Manually Curated
- contributes to histone H3K4 methyltransferase activity (IDA, IMP)
- enables protein-lysine N-methyltransferase activity (IMP, IGI)
- enables RNA binding (IDA, IMP)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in ascospore formation (IMP)
- involved in cellular response to stress (IGI, IMP)
- involved in meiotic DNA double-strand break formation (IMP)
- involved in negative regulation of transcription by RNA polymerase II (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in regulation of chromatin organization (IMP)
- involved in regulation of meiotic DNA double-strand break formation (IMP)
- involved in regulation of transcription by RNA polymerase II (IGI, IMP)
- involved in silent mating-type cassette heterochromatin formation (IMP)
- involved in subtelomeric heterochromatin formation (IMP)
- involved in telomere maintenance (IMP)
Cellular Component
- Manually Curated
- part of Set1C/COMPASS complex (IPI)
Complex
Macromolecular complex annotations are imported from the Complex Portal. These annotations have been derived from physical molecular interaction evidence extracted from the literature and cross-referenced in the entry, or by curator inference from information on homologs in closely related species or by inference from scientific background.
Phenotype
Phenotype annotations for a gene are curated single mutant phenotypes that require an observable (e.g., "cell shape"), a qualifier (e.g., "abnormal"), a mutant type (e.g., null), strain background, and a reference. In addition, annotations are classified as classical genetics or high-throughput (e.g., large scale survey, systematic mutation set). Whenever possible, allele information and additional details are provided. Click "Phenotype Details" to view all phenotype annotations and evidence for this locus as well as phenotypes it shares with other genes.
- Summary
- Non-essential gene; null mutation causes lack of methylation at Lys4 of histone H3 and lowers silencing at telomeres and HML locus; null mutants have multiple buds, defects in cell wall and increased flocculation; also show sensitivity to gamma rays, formamide and rapamycin, and lower survival rate in stationary phase
Classical Genetics
- null
- bud morphology: abnormal
- budding pattern: abnormal
- cell shape: abnormal
- cell wall morphology: abnormal
- chromosome/plasmid maintenance: decreased
- colony size: decreased
- competitive fitness: decreased
- endomembrane system morphology: abnormal
- fermentative metabolism: increased
- flocculation: increased
- gamma ray resistance: decreased
- protein/peptide accumulation: decreased
- protein/peptide accumulation: increased
- protein/peptide modification: absent
- protein/peptide modification: decreased
- protein/peptide modification: increased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- RNA accumulation: abnormal
- RNA accumulation: decreased
- RNA accumulation: increased
- silencing: absent
- silencing: decreased
- sporulation: absent
- sporulation: decreased
- survival rate in stationary phase: decreased
- telomere length: decreased
- viability: decreased
- viable
- null
Large-scale Survey
Interaction
Interaction annotations are curated by BioGRID and include physical or genetic interactions observed between at least two genes. An interaction annotation is composed of the interaction type, name of the interactor, assay type (e.g., Two-Hybrid), annotation type (e.g., manual or high-throughput), and a reference, as well as other experimental details. Click "Interaction Details" to view all interaction annotations and evidence for this locus, including an interaction visualization.
868 total interactions for 499 unique genes
Physical Interactions
- Affinity Capture-MS: 128
- Affinity Capture-RNA: 5
- Affinity Capture-Western: 43
- Biochemical Activity: 12
- Co-crystal Structure: 6
- Co-fractionation: 1
- Co-localization: 6
- Co-purification: 31
- Protein-RNA: 4
- Reconstituted Complex: 23
- Two-hybrid: 12
Genetic Interactions
- Dosage Rescue: 6
- Negative Genetic: 332
- Phenotypic Enhancement: 23
- Phenotypic Suppression: 38
- Positive Genetic: 85
- Synthetic Growth Defect: 37
- Synthetic Lethality: 10
- Synthetic Rescue: 66
Regulation
The number of putative Regulators (genes that regulate it) and Targets (genes it regulates) for the given locus, based on experimental evidence. This evidence includes data generated through high-throughput techniques. Click "Regulation Details" to view all regulation annotations, shared GO enrichment among regulation Targets, and a regulator/target diagram for the locus.
Expression
Expression data are derived from records contained in the Gene Expression Omnibus (GEO), and are first log2 transformed and normalized. Referenced datasets may contain one or more condition(s), and as a result there may be a greater number of conditions than datasets represented in a single clickable histogram bar. The histogram division at 0.0 separates the down-regulated (green) conditions and datasets from those that are up-regulated (red). Click "Expression Details" to view all expression annotations and details for this locus, including a visualization of genes that share a similar expression pattern.
Literature
All manually curated literature for the specified gene, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review). Click "Literature Details" to view all literature information for this locus, including shared literature between genes.