rrp40 exosome subunit Rrp40 [Schizosaccharomyces pombe (fission yeast)] - Gene

Summary

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Gene symbol: rrp40
Gene description: exosome subunit Rrp40
Locus tag: SPOM_SPAC22A12.12C
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Schizosaccharomyces pombe (strain: 972h-)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Taphrinomycotina; Schizosaccharomycetes; Schizosaccharomycetales; Schizosaccharomycetaceae; Schizosaccharomyces
Old locus tag: SPAC22A12.12c
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Genomic context

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See rrp40 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 1

Sequence:: Chromosome: I; NC_003424.3 (1178856..1179940, complement)

Chromosome I - NC_003424.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003424.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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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 PomBase

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in CUT catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in TRAMP-dependent tRNA surveillance pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in U4 snRNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IBA Inferred from Biological aspect of Ancestor more info
involved_in nonfunctional rRNA decay	ISO Inferred from Sequence Orthology more info
involved_in nuclear mRNA surveillance	TAS Traceable Author Statement more info	PubMed
involved_in nuclear polyadenylation-dependent mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process, non-stop decay	ISO Inferred from Sequence Orthology more info
involved_in poly(A)-dependent snoRNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of cytoplasmic exosome (RNase complex)	IBA Inferred from Biological aspect of Ancestor more info
part_of exosome (RNase complex)	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear exosome (RNase complex)	EXP Inferred from Experiment more info	PubMed
part_of nuclear exosome (RNase complex)	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: exosome subunit Rrp40

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_003424.3 Reference assembly

Range

1178856..1179940 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001018639.3 → NP_593242.1 exosome subunit Rrp40 [Schizosaccharomyces pombe]

See identical proteins and their annotated locations for NP_593242.1

Status: PROVISIONAL

UniProtKB/Swiss-Prot

O13903

Conserved Domains (3) summary

COG1097
Location:8 → 240

Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]

cd05790
Location:71 → 157

S1_Rrp40; S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation ...

pfam15985
Location:160 → 207

KH_6; KH domain