EXOSC9

exosome component 9 | PM/Scl-75, RRP45, Rrp45p, p5, p6, PMSCL1

This gene encodes a component of the human exosome, a exoribonuclease complex which processes and degrades RNA in the nucleus and cytoplasm. This component may play a role in mRNA degradation and the polymyositis/scleroderma autoantigen complex. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2011]

Member of: DE-6 Developmental clusters: GC4

Biological processes 51 terms

3'-5'-RNA exonuclease activity (GO:0000175)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA catabolic process (GO:0006401)RNA catabolic process (GO:0006401)RNA exonuclease activity (GO:0004532)RNA polymerase II-specific DNA-binding transcription factor binding (GO:0061629)RNA processing (GO:0006396)RNA processing (GO:0006396)TRAMP-dependent tRNA surveillance pathway (GO:0071038)U1 snRNA 3'-end processing (GO:0034473)U4 snRNA 3'-end processing (GO:0034475)U5 snRNA 3'-end processing (GO:0034476)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasmic exosome (RNase complex) (GO:0000177)cytosol (GO:0005829)cytosol (GO:0005829)exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000467)exoribonuclease complex (GO:1905354)exosome (RNase complex) (GO:0000178)exosome (RNase complex) (GO:0000178)extracellular exosome (GO:0070062)immune response (GO:0006955)mRNA 3'-UTR AU-rich region binding (GO:0035925)mRNA 3'-UTR AU-rich region binding (GO:0035925)mRNA catabolic process (GO:0006402)nuclear chromosome (GO:0000228)nuclear exosome (RNase complex) (GO:0000176)nuclear exosome (RNase complex) (GO:0000176)nuclear exosome (RNase complex) (GO:0000176)nuclear mRNA surveillance (GO:0071028)nuclear mRNA surveillance (GO:0071028)nuclear polyadenylation-dependent rRNA catabolic process (GO:0071035)nuclear polyadenylation-dependent rRNA catabolic process (GO:0071035)nuclear-transcribed mRNA catabolic process (GO:0000956)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of cell growth (GO:0030307)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)rRNA catabolic process (GO:0016075)rRNA processing (GO:0006364)

Expression (TPM)

TFs regulating EXOSC9 0 TFs

Transcription factors with Perturb-seq knockdown data for EXOSC9. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = EXOSC9 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to EXOSC9

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of EXOSC9, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Element	Dist. to TSS	Link type	TFs
chr4:121,514,259–121,514,846	286.7 kb	Distal (>10kb) Multiome	104
chr4:121,696,158–121,697,590	104.3 kb	Distal (>10kb) Multiome	831
chr4:121,711,374–121,712,252	89.6 kb	Distal (>10kb) Multiome	592
chr4:121,749,014–121,749,684	51.9 kb	Distal (>10kb) Multiome	138
chr4:121,764,589–121,765,761	36.3 kb	Distal (>10kb) Multiome	279
chr4:121,796,374–121,796,616	4.7 kb	Proximal (<10kb)	30
chr4:121,797,061–121,797,251	4.1 kb	Proximal (<10kb)	18
chr4:121,800,778–121,801,755	11 bp	At TSS Multiome	866
chr4:121,822,774–121,824,390	22.6 kb	Distal (>10kb) Multiome	880
chr4:121,869,547–121,871,130	69.1 kb	Distal (>10kb) Multiome	687
chr4:121,900,129–121,900,683	99.1 kb	Distal (>10kb) Multiome	142
chr4:121,950,003–121,952,427	149.0 kb	Distal (>10kb) Multiome	598

Genome Browser

Genomic view of the EXOSC9 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.