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Exosc9 exosome component 9 [ Rattus norvegicus (Norway rat) ]

Gene ID: 294975, updated on 10-Jul-2024

Summary

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Official Symbol
Exosc9provided by RGD
Official Full Name
exosome component 9provided by RGD
Primary source
RGD:1307888
See related
EnsemblRapid:ENSRNOG00000014674 AllianceGenome:RGD:1307888
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
Enables RNA polymerase II-specific DNA-binding transcription factor binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm and nuclear lumen. Predicted to be part of cytoplasmic exosome (RNase complex) and nuclear exosome (RNase complex). Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia. Orthologous to human EXOSC9 (exosome component 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 183.7), Spleen (RPKM 130.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Exosc9 in Genome Data Viewer
Location:
2q25
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (121344154..121355110)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (119416028..119426981)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (123264679..123275623)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene annexin A5 Neighboring gene small integral membrane protein 43 Neighboring gene cyclin A2 Neighboring gene Bardet-Biedl syndrome 7

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. The polymyositis-scleroderma autoantigen interacts with the helix-loop-helix proteins E12 and E47. Kho CJ, et al. J Biol Chem, 1997 May 16. PMID 9148967
  2. Adenylation and exosome-mediated degradation of cotranscriptionally cleaved pre-messenger RNA in human cells. West S, et al. Mol Cell, 2006 Feb 3. PMID 16455498
  3. The mammalian exosome mediates the efficient degradation of mRNAs that contain AU-rich elements. Mukherjee D, et al. EMBO J, 2002 Jan 15. PMID 11782436, Free PMC Article
  4. A SUMO-dependent interaction between Senataxin and the exosome, disrupted in the neurodegenerative disease AOA2, targets the exosome to sites of transcription-induced DNA damage. Richard P, et al. Genes Dev, 2013 Oct 15. PMID 24105744, Free PMC Article
  5. 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

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

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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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
NOT enables RNA exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables mRNA 3'-UTR AU-rich region binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA 3'-UTR AU-rich region binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in RNA catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA processing IEA
Inferred from Electronic Annotation
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 U1 snRNA 3'-end processing 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 U5 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 mRNA catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in nuclear mRNA surveillance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nuclear mRNA surveillance 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 polyadenylation-dependent rRNA catabolic process ISO
Inferred from Sequence Orthology
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 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 positive regulation of cell growth ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
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) IEA
Inferred from Electronic Annotation
more info
  
part_of exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
  
part_of exosome (RNase complex) ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nuclear chromosome ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear chromosome ISS
Inferred from Sequence or Structural Similarity
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
  
NOT located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
exosome complex component RRP45
Names
exosome complex exonuclease RRP45

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_001025406.1 → NP_001020577.1  exosome complex component RRP45

    See identical proteins and their annotated locations for NP_001020577.1

    Status: PROVISIONAL

    Source sequence(s)
    BC097413
    UniProtKB/Swiss-Prot
    Q4QR75
    UniProtKB/TrEMBL
    A0A8I6AG44, A6IHY2
    Related
    ENSRNOP00000020662.4, ENSRNOT00000020662.8
    Conserved Domains (1) summary
    cd11368
    Location:6 → 264
    RNase_PH_RRP45; RRP45 subunit of eukaryotic exosome

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_086020.1 Reference GRCr8

    Range
    121344154..121355110
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063281565.1 → XP_063137635.1  exosome complex component RRP45 isoform X2

    UniProtKB/TrEMBL
    A0A8I6AG44

  2. XM_039101991.2 → XP_038957919.1  exosome complex component RRP45 isoform X1

    Conserved Domains (1) summary
    cd11368
    Location:6 → 264
    RNase_PH_RRP45; RRP45 subunit of eukaryotic exosome
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4QR75.1 GenPept UniProtKB/Swiss-Prot:Q4QR75

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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