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

Summary

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 cytosol 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 type 1D. Orthologous to human EXOSC9 (exosome component 9). [provided by Alliance of Genome Resources, Dec 2024]
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

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_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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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

AA850100 (e-PCR)
- UniSTS:250257

RH128356 (e-PCR)
- UniSTS:211664

RH142682 (e-PCR)
- UniSTS:231929

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	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	ISO Inferred from Sequence Orthology 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
involved_in rRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info

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

NP_001020577.1

EC 3.1.13.-

XP_038957919.1

EC 3.1.13.-

XP_063137635.1

EC 3.1.13.-

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_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

NC_086020.1 Reference GRCr8

Range

121344154..121355110

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

A0A8I6AG44
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