exosc2 exosome component 2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: exosc2provided by ZNC
Official Full Name: exosome component 2provided by ZNC
Primary source: ZFIN:ZDB-GENE-050417-27
See related: Ensembl:ENSDARG00000028688 AllianceGenome:ZFIN:ZDB-GENE-050417-27
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fa97b01; wu:fa97b01; zgc:110117
Summary: Predicted to enable RNA binding activity. Acts upstream of or within neural retina development; ribonucleotide metabolic process; and spinal cord development. Predicted to be part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Is expressed in immature eye; midbrain hindbrain boundary; and optic tectum. Human ortholog(s) of this gene implicated in short stature, hearing loss, retinitis pigmentosa, and distinctive facies. Orthologous to human EXOSC2 (exosome component 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (72137331..72143289)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (71352825..71358783)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Exosc2 deficiency leads to developmental disorders by causing a nucleotide pool imbalance in zebrafish.
Title: Exosc2 deficiency leads to developmental disorders by causing a nucleotide pool imbalance in zebrafish.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IEA Inferred from Electronic Annotation 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
acts_upstream_of_or_within neural retina development	IMP Inferred from Mutant Phenotype more info	PubMed
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 poly(A)-dependent snoRNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within rRNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ribonucleotide metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within spinal cord development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of cytoplasmic exosome (RNase complex)	IBA Inferred from Biological aspect of Ancestor more info
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

General protein information

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Preferred Names: exosome complex component RRP4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001017572.2 → NP_001017572.2 exosome complex component RRP4

Status: VALIDATED

Source sequence(s)

EH525603, EH545647

UniProtKB/TrEMBL

A0A8M1N4Y5, F8W3K6

Related

ENSDARP00000124376.1, ENSDART00000149195.2

Conserved Domains (3) summary

cd05789
Location:77 → 168

S1_Rrp4; S1_Rrp4: Rrp4 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 in ...

pfam14382
Location:28 → 65

ECR1_N; Exosome complex exonuclease RRP4 N-terminal region

pfam15985
Location:171 → 211

KH_6; KH domain