SPN1 / YPR133C Overview
- Standard Name
- SPN1 1
- Systematic Name
- YPR133C
- SGD ID
- SGD:S000006337
- Aliases
- IWS1 2
- Feature Type
- ORF , Verified
- Description
- Protein involved in RNA polymerase II transcription; also required for histone modifications and splicing; constitutively recruited to the CYC1 promoter and required for recruitment of chromatin remodeling factors for the expression of CYC1 gene; interacts genetically or physically with RNAP II, TBP, TFIIS, and chromatin remodelling factors; central domain is highly conserved throughout eukaryotes; mutations confer an Spt- phenotype 1 2 3 4 5 6
- Name Description
- Suppresses Postrecruitment functions gene Number 1 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.)
- 410
- Mol. Weight (Da)
- 46083.1
- Isoelectric Point
- 7.79
- Median Abundance (molecules/cell)
- 8336 +/- 4165
- Half-life (hr)
- 8.6
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.
View all SPN1 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
- Non-DNA binding transcription factor; involved in regulation of transcription from RNA Polymerase II and poly(A)+ mRNA export from nucleus
View computational annotations
Molecular Function
- Manually Curated
- enables chromatin binding (IDA)
- enables RNA polymerase II complex binding (IPI)
- enables RNA polymerase II-specific DNA-binding transcription factor binding (IPI)
Biological Process
- Manually Curated
- involved in nucleosome assembly (IMP)
- involved in poly(A)+ mRNA export from nucleus (IMP)
- involved in regulation of transcription by RNA polymerase II (IPI, IGI)
- involved in regulation of transcription elongation by RNA polymerase II (IGI)
Cellular Component
- Manually Curated
- located in nucleus (IC)
- part of RNA polymerase II, core complex (IMP)
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
- conditional
- reduction of function
- null
- reduction of function
- unspecified
- conditional
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.
680 total interactions for 476 unique genes
Physical Interactions
- Affinity Capture-MS: 73
- Affinity Capture-RNA: 7
- Affinity Capture-Western: 16
- Co-crystal Structure: 1
- PCA: 4
- Proximity Label-MS: 2
- Reconstituted Complex: 7
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Rescue: 1
- Negative Genetic: 439
- Phenotypic Suppression: 1
- Positive Genetic: 83
- Synthetic Growth Defect: 20
- Synthetic Lethality: 5
- Synthetic Rescue: 20
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
- SPN1 encodes a highly-conserved chromatin-associated transcription factor with a conserved central domain composed of eight alpha-helices similar in structure to TFIIS. Spn1p occupies poised promoters in the uninduced state, along with RNA polymerase II. Histone chaperone Spt6p and the Swi/Snf complex are recruited upon activation. Spt6p promotes reassembly of nucleosomes following passage of RNA polymerase II. By interacting with both RNA polymerase II and Spt6p, Spn1p links the regulation of the poised promoter to chromatin architecture, and is an important regulator of the Spt6-nucleosome interaction. Binding of Spn1p at poised promoters blocks the recruitment of the Swi/Snf complex in the uninduced state and serves as a platform for the recruitment of Spt6p during the activated state. Spn1p and Spt6p have also been implicated in mRNA processing.
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.