CSL4 exosome non-catalytic core subunit CSL4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: CSL4
Official Full Name: exosome non-catalytic core subunit CSL4
Primary source: SGD:S000005176
Locus tag: YNL232W
See related: AllianceGenome:SGD:S000005176; FungiDB:YNL232W; VEuPathDB:YNL232W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: SKI4
Summary: Predicted to enable RNA binding activity. Involved in RNA metabolic process. Located in cytoplasm and nucleus. Part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Used to study dilated cardiomyopathy; microcephaly; pontocerebellar hypoplasia type 1F; and scleral disease. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 1F. Orthologous to human EXOSC1 (exosome component 1). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See CSL4 in Genome Data Viewer

Location:: chromosome: XIV

Exon count:: 1

Sequence:: Chromosome: XIV; NC_001146.8 (214923..215801)

Chromosome XIV - NC_001146.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001146.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The three cap proteins (Csl4, Rrp4 and Rrp40) and the nuclease (Rrp44) are multidomain proteins with the expected conformational variability.
Title: Structure determination of an 11-subunit exosome in complex with RNA by molecular replacement.

Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
involved_in TRAMP-dependent tRNA surveillance pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, non-stop decay	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
part_of cytoplasmic exosome (RNase complex)	IDA Inferred from Direct Assay more info	PubMed
part_of exosome (RNase complex)	IEA Inferred from Electronic Annotation more info
part_of nuclear exosome (RNase complex)	IBA Inferred from Biological aspect of Ancestor more info
part_of nuclear exosome (RNase complex)	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: exosome non-catalytic core subunit CSL4

NP_014167.1

Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain an S1 RNA binding domain; human homolog EXOSC1 partially complements yeast csl4 null mutant, and can complement inviability of strain in which expression of CSL4 is repressed

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001146.8 Reference assembly

Range

214923..215801

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001183070.1 → NP_014167.1 TPA: exosome non-catalytic core subunit CSL4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_014167.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W0W0, P53859

UniProtKB/TrEMBL

A6ZRL0, B3LP73, B5VQH8, C7GPC7, C8ZG03, G2WLN3, N1NYG7

Conserved Domains (1) summary

COG1096
Location:58 → 292

Csl4; Exosome complex RNA-binding protein Csl4, contains S1 and Zn-ribbon domains [Translation, ribosomal structure and biogenesis]