RPO21 / YDL140C Overview
- Standard Name
- RPO21 1
- Systematic Name
- YDL140C
- SGD ID
- SGD:S000002299
- Aliases
- RPB1 36 , RPB220 37 , SUA8 38 , B220 39 , SIT1 40
- Feature Type
- ORF , Verified
- Description
- RNA polymerase II largest subunit B220; part of central core; phosphorylation of C-terminal heptapeptide repeat domain regulates association with transcription and splicing factors; similar to bacterial beta-prime 2 3 4 5 6 7
- Name Description
- RNA POlymerase 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.
- Summary
- Rpo21p is 1733 amino acids long, shorter-lived, low-to-moderate in abundance; RNA polymerase II largest subunit B220; phosphorylation of C-terminal heptapeptide repeat domain regulates association with transcription and splicing factors
- Length (a.a.)
- 1733
- Mol. Weight (Da)
- 191570.4
- Isoelectric Point
- 5.33
- Median Abundance (molecules/cell)
- 16113 +/- 5824
- Half-life (hr)
- 6.1
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 RPO21 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
- An RNA-directed RNA polymerase with a role in translesion synthesis and transcription from RNA polymerase II promoter; localized to the core complex of RNA polymerase II
View computational annotations
Molecular Function
- Manually Curated
- enables DNA binding (IDA)
- contributes to RNA polymerase II activity (IDA)
- contributes to RNA-dependent RNA polymerase activity (IDA)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in transcription by RNA polymerase II (IMP)
- involved in translesion synthesis (IMP)
Cellular Component
- Manually Curated
- located in cytoplasmic stress granule (HDA)
- located in mitochondrion (HDA)
- located in nucleus (HDA)
- part of RNA polymerase II, core 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.
- Summary
- Essential gene; reduction of function leads to slow growth, lower mRNA production and decreasing cell viability; depletion causes inositol auxotrophy
Classical Genetics
- repressible
- conditional
- auxotrophy
- cell cycle passage through START: arrested
- cold sensitivity: increased
- heat sensitivity: increased
- protein/peptide accumulation: decreased
- protein/peptide distribution: abnormal
- RNA accumulation: decreased
- RNA accumulation: increased
- subcellular morphology: abnormal
- vegetative growth: decreased
- viability: decreased
- null
- reduction of function
- unspecified
- null
- reduction of function
- overexpression
- conditional
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast RPO21 is homologous to human POLR2A and has been used to study mutations found in patients with Cockayne Syndrome; lack of transcription recovery in Cockayne syndrome is caused by unstable RNAPII
Manually Curated
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
- Rpo21p interacts physically with proteins involved in transcription; RPO21 interacts genetically with genes involved in transcription
2360 total interactions for 1342 unique genes
Physical Interactions
- Affinity Capture-MS: 438
- Affinity Capture-RNA: 12
- Affinity Capture-Western: 248
- Biochemical Activity: 65
- Co-crystal Structure: 24
- Co-fractionation: 3
- Co-localization: 18
- Co-purification: 32
- Cross-Linking-MS (XL-MS): 3
- Far Western: 9
- PCA: 1
- Protein-peptide: 21
- Protein-RNA: 1
- Proximity Label-MS: 2
- Reconstituted Complex: 78
- Two-hybrid: 32
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Lethality: 1
- Dosage Rescue: 16
- Negative Genetic: 823
- Phenotypic Enhancement: 15
- Phenotypic Suppression: 18
- Positive Genetic: 341
- Synthetic Growth Defect: 75
- Synthetic Lethality: 43
- Synthetic Rescue: 40
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
- RPO21 promoter is bound by Reb1p; RPO21 transcription is regulated by Gcr1p; RPO21 transcription is upregulated by Ifh1p and Sfp1p during stress response; Rpo21 protein activity is upregulated by Ctk1p, Kin28p, and Sgv1p; Rpo21 protein activity is upregulated by Slt2p in response to heat and Hog1p in response to stress
- Regulators
- 30
- Targets
- 0
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.
Summary Paragraph
A summary of the locus, written by SGD Biocurators following a thorough review of the literature. Links to gene names and curated GO terms are included within the Summary Paragraphs.
Last Updated: 2010-04-29
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.