YCR023C


Systematic Name
YCR023C
SGD ID
SGD:S000000617
Feature Type
ORF , Verified
Description
Vacuolar membrane protein of unknown function; homolog of human CLN7 which is an organellar chloride channel regulating lysosomal function; targeted to vacuole via AP-3 pathway; member of multidrug resistance family; not an essential gene 1 2 3 4
Comparative Info
Sequence Details

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
YCR023C is located on the right arm of chromosome III toward the centromere and between YCR022C protein of unknown function and SLM5 mitochondrial asparaginyl-tRNA synthetase; coding sequence is 1836 nucleotides long with 8 SNPs, 6 of which cause amino acid polymorphisms
Protein Details

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
Ycr023cp is 611 amino acids long, low in abundance; contains disordered region near middle of protein; phosphorylated on 7 residues
Length (a.a.)
611
Mol. Weight (Da)
69217.3
Isoelectric Point
7.39
Median Abundance (molecules/cell)
1345 +/- 443

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 YCR023C alleles in SGD search

Gene Ontology Details

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
Vacuolar membrane protein whose biological role is unknown

View computational annotations

Molecular Function

Manually Curated

Biological Process

Manually Curated

Cellular Component

Manually Curated
Phenotype Details

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
YCR023C null mutants are viable but show decreased competitive fitness in minimal and synthetic oak exudate media but increased competitive fitness in the presence of ethanol. They also display decreased heat sensitivity and increased resistance to metals, such as gadolinium and yttrium chloride. Additionally, these mutants have a decreased rate of nitrogen source utilization (specifically glutamate) and abnormal vacuolar morphology, with a small defect in vacuolar fragmentation in response to salt addition.
Disease Details

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 YCR023C is homologous to human CLN7/MFSD8 and has been used to study neuronal ceroid lipofuscinosis, which is a lipid storage disease

Manually Curated

Interaction Details

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
Ycr023cp interacts physically with proteins involved in RNA catabolism; YCR023C interacts genetically with genes involved in DNA repair

62 total interactions for 60 unique genes

Physical Interactions

  • Affinity Capture-RNA: 9
  • Biochemical Activity: 1

Genetic Interactions

  • Dosage Growth Defect: 1
  • Dosage Lethality: 1
  • Negative Genetic: 43
  • Positive Genetic: 6
  • Synthetic Rescue: 1
Regulation Details

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
YCR023C promoter is bound by Gcn5p in response to heat
Regulators
1
Targets
0
Expression Details

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: 2024-11-14

Literature Details

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.


Primary
5
Additional
7
Reviews
0

Resources