RAI1 / YGL246C Overview
- Standard Name
- RAI1 1
- Systematic Name
- YGL246C
- SGD ID
- SGD:S000003215
- Feature Type
- ORF , Verified
- Description
- Nuclear decapping endonuclease; targets mRNAs with unmethylated 7-methylguanosine cap structures and 5'-triphosphates; binds to and stabilizes the exoribonuclease Rat1p; required for pre-rRNA processing; involved in an early step of decapping non-canonical nicotinamide adenine dinucleotide (NAD) capped nuclear mRNAs (NAD-RNAs), part of ncRNA surveillance; relocalizes to the cytosol in response to hypoxia; homologous to human DOM3Z 1 2 3 4 5
- Name Description
- Rat1p Interacting Protein 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
- Relocalizes to the cytosol in response to hypoxia
- Length (a.a.)
- 387
- Mol. Weight (Da)
- 44505.9
- Isoelectric Point
- 6.52
- Median Abundance (molecules/cell)
- 3843 +/- 567
- Half-life (hr)
- 11.5
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 RAI1 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
- Phosphodiesterase decapping endonuclease and mRNA 5'-diphosphatase; involved in deadenylation-independent decapping of nuclear-transcribed mRNA and in maturation of LSU-rRNA from tricistronic rRNA transcript; localizes in cytosol and nucleus
View computational annotations
Molecular Function
- Manually Curated
- enables enzyme regulator activity (IDA)
- enables mRNA 5'-diphosphatase activity (IDA)
- enables phosphodiesterase decapping endonuclease activity (IDA, IMP)
Biological Process
- Manually Curated
- involved in cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (IDA)
- involved in deadenylation-independent decapping of nuclear-transcribed mRNA (IDA)
- involved in maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (IMP)
- involved in maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (IMP)
- acts upstream of or within NAD-cap decapping (IMP)
- involved in nuclear polyadenylation-dependent rRNA catabolic process (IMP)
- involved in nuclear-transcribed mRNA catabolic process (IMP)
- involved in termination of RNA polymerase II transcription, poly(A)-coupled (IMP)
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
- budding pattern: abnormal
- cell shape: abnormal
- cell size: decreased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- competitive fitness: decreased
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- innate thermotolerance: decreased
- metal resistance: decreased
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to enzymatic treatment: increased
- sporulation: absent
- sporulation: decreased
- stress resistance: increased
- toxin resistance: increased
- utilization of carbon source: decreased
- utilization of carbon source: increased
- utilization of nitrogen source: decreased rate
- utilization of phosphorus source: decreased
- vacuolar morphology: abnormal
- vegetative growth: decreased rate
- viable
- repressible
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.
169 total interactions for 121 unique genes
Physical Interactions
- Affinity Capture-MS: 125
- Affinity Capture-RNA: 4
- Affinity Capture-Western: 9
- Biochemical Activity: 3
- Co-localization: 1
- Co-purification: 1
- Reconstituted Complex: 1
Genetic Interactions
- Dosage Rescue: 2
- Negative Genetic: 8
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 1
- Positive Genetic: 1
- Synthetic Growth Defect: 3
- Synthetic Lethality: 8
- 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.
- Regulators
- 3
- 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.
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.