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Exosc2 exosome component 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 366017, updated on 27-Nov-2024

Summary

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Official Symbol
Exosc2provided by RGD
Official Full Name
exosome component 2provided by RGD
Primary source
RGD:1306573
See related
EnsemblRapid:ENSRNOG00000009245 AllianceGenome:RGD:1306573
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable RNA binding activity. Predicted to be involved in RNA metabolic process and positive regulation of cell growth. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). 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, Nov 2024]
Expression
Biased expression in Thymus (RPKM 85.0), Spleen (RPKM 72.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Exosc2 in Genome Data Viewer
Location:
3p12
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (35360652..35370948)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (14962930..14973645)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (10151734..10161997, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene far upstream element binding protein 3 Neighboring gene PR/SET domain 12 Neighboring gene ABL proto-oncogene 1, non-receptor tyrosine kinase Neighboring gene uncharacterized LOC134486069 Neighboring gene pyroglutamylated RFamide peptide

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. NVL2, a nucleolar AAA-ATPase, is associated with the nuclear exosome and is involved in pre-rRNA processing. Yoshikatsu Y, et al. Biochem Biophys Res Commun, 2015 Aug 28. PMID 26166824
  2. Human cell growth requires a functional cytoplasmic exosome, which is involved in various mRNA decay pathways. van Dijk EL, et al. RNA, 2007 Jul. PMID 17545563, Free PMC Article
  3. Protein-protein interactions between human exosome components support the assembly of RNase PH-type subunits into a six-membered PNPase-like ring. Raijmakers R, et al. J Mol Biol, 2002 Nov 1. PMID 12419256
  4. Dis3-like 1: a novel exoribonuclease associated with the human exosome. Staals RH, et al. EMBO J, 2010 Jul 21. PMID 20531389, Free PMC Article
  5. Reconstitution, activities, and structure of the eukaryotic RNA exosome. Liu Q, et al. Cell, 2006 Dec 15. PMID 17174896

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
NOT enables RNA exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in CUT catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in RNA catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA processing ISO
Inferred from Sequence Orthology
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 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
  
involved_in positive regulation of cell growth ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of cytoplasmic exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
part_of exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
  
part_of nuclear exosome (RNase complex) IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nuclear exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
exosome complex component RRP4
Names
exosome complex exonuclease 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)

  1. NM_001108952.1 → NP_001102422.1  exosome complex component RRP4

    See identical proteins and their annotated locations for NP_001102422.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474001
    UniProtKB/TrEMBL
    A6JU28, D3ZBP3
    Related
    ENSRNOP00000012311.3, ENSRNOT00000012312.8
    Conserved Domains (2) summary
    COG1097
    Location:22 → 243
    Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
    cd22525
    Location:169 → 285
    KH-I_Rrp4_eukar; type I K homology (KH) RNA-binding domain found in exosome complex component Rrp4 from eukaryote

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    35360652..35370948
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063284261.1 → XP_063140331.1  exosome complex component RRP4 isoform X1

  2. XM_039105586.2 → XP_038961514.1  exosome complex component RRP4 isoform X2

    Conserved Domains (2) summary
    cd05789
    Location:2 → 54
    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 ...
    cd22525
    Location:57 → 173
    KH-I_Rrp4_eukar; type I K homology (KH) RNA-binding domain found in exosome complex component Rrp4 from eukaryote
Nucleotide Protein Strain
Heading Accession and Version

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