UME1 / YPL139C Overview
- Standard Name
- UME1 1
- Systematic Name
- YPL139C
- SGD ID
- SGD:S000006060
- Aliases
- WTM3 2
- Feature Type
- ORF , Verified
- Description
- Component of both the Rpd3S and Rpd3L histone deacetylase complexes; negative regulator of meiosis; required for repression of a subset of meiotic genes during vegetative growth, binding of histone deacetylase Rpd3p required for activity, contains a NEE box and a WD repeat motif; homologous with Wtm1p; UME1 has a paralog, WTM2, that arose from the whole genome duplication 1 2 3 4 5 6
- Name Description
- Unscheduled Meiotic gene Expression 1
- Paralog
- WTM2 5
- 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.
- Summary
- UME1 has a paralog, WTM2, that arose from the whole genome duplication
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.)
- 460
- Mol. Weight (Da)
- 51005.1
- Isoelectric Point
- 4.9
- Median Abundance (molecules/cell)
- 4286 +/- 1357
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.
View all UME1 alleles in SGD search
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 RPD3L and RPD3S histone deacetylase complexes; involved in regulation of transcription by RNA polymerase II; localized to the nucleus
View computational annotations
Molecular Function
- Manually Curated
- enables transcription corepressor activity (IDA)
Biological Process
- Manually Curated
- involved in cellular response to heat (IMP)
- involved in negative regulation of transcription by RNA polymerase I (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in regulation of meiotic nuclear division (IMP)
Cellular Component
- Manually Curated
- located in cytoplasm (IDA)
- located in nucleus (IDA)
- part of Rpd3L complex (IDA, HDA)
- part of Rpd3L-Expanded complex (HDA)
- part of Rpd3S complex (IDA)
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.
Classical Genetics
- null
- chemical compound accumulation: abnormal
- chronological lifespan: decreased
- chronological lifespan: increased
- competitive fitness: decreased
- competitive fitness: increased
- desiccation resistance: decreased
- heat sensitivity: increased
- oxidative stress resistance: decreased
- oxidative stress resistance: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation: abnormal
- sporulation: decreased
- toxin resistance: increased
- utilization of nitrogen source: decreased rate
- UV resistance: decreased
- vacuolar morphology: abnormal
- viable
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.
- Summary
- The ume1 null mutant is viable; the null mutant of paralog wtm2 is viable; the ume1 wtm2 double mutant has not been annotated for phenotype.
464 total interactions for 309 unique genes
Physical Interactions
- Affinity Capture-MS: 116
- Affinity Capture-RNA: 4
- Affinity Capture-Western: 9
- Biochemical Activity: 5
- Co-purification: 4
- PCA: 3
- Protein-peptide: 1
- Reconstituted Complex: 5
Genetic Interactions
- Negative Genetic: 258
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 1
- Positive Genetic: 50
- Synthetic Growth Defect: 6
- Synthetic Rescue: 1
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.
- Summary
- Ume1p regulates gene expression through its membership in the core Rpd3 class I histone deacetylase complex (HDAC) that contributes to chromatin stabilization and limits the accessibility of transcriptional factors to the underlying DNA. The Rpd3 complex negatively regulates meiosis and is required for repression of certain meiotic genes during vegetative growth. Two distinct Rpd3 complexes have been identified: a small Rpd3S complex and a large Rpd3L complex. These two complexes share the three subunits, Rpd3p, Sin3p, and Ume1p in common.
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.