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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
EXOSC9
exosome component 9
Chromosome 4 Β· 4q27
NCBI Gene: 5393Ensembl: ENSG00000123737.14HGNC: HGNC:9137UniProt: B4DXG8
129PubMed Papers
21Diseases
0Drugs
31Pathogenic Variants
FUNCTIONAL ROLE
Hub Gene
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
nuclear polyadenylation-dependent rRNA catabolic processnuclear exosome (RNase complex)nuclear chromosomenucleuspontocerebellar hypoplasia, type 1Dneurodegenerative diseasepontocerebellar hypoplasia type 1pontocerebellar hypoplasia
✦AI Summary

EXOSC9 encodes a non-catalytic structural component of the RNA exosome complex, a multi-subunit ribonuclease that processes and degrades various RNA species 1. The protein functions in both nuclear and cytoplasmic RNA metabolism, participating in ribosome biogenesis, mRNA turnover, and RNA surveillance pathways 1. EXOSC9 contains an RNA-binding motif essential for its function in stress resistance and P-body formation, which are critical for cellular adaptation to stress conditions 2. The protein also regulates telomeric integrity by degrading long non-coding RNA TERRA in a cell cycle-dependent manner, with recruitment to telomeres mediated by SUMOylated HP1Ξ± 3. Disease-causing mutations in EXOSC9 result in pontocerebellar hypoplasia type 1D (PCH1D), characterized by cerebellar atrophy, spinal motor neuronopathy, and severe developmental abnormalities 45. These mutations disrupt the exosome complex integrity and lead to widespread gene expression changes affecting neuronal development 4. The pathogenic mechanism involves increased p53 levels and enhanced apoptosis during development, suggesting EXOSC9-related disorders represent ribosomopathies 6. Higher EXOSC9 activity correlates with poorer prognosis in some cancers, making it a potential therapeutic target 2.

Sources cited
1
EXOSC9 is a structural component of the RNA exosome complex linked to human disease
PMID: 31768969
2
EXOSC9 contains RNA-binding motif essential for stress resistance and P-body formation, and correlates with cancer prognosis
PMID: 32518284
3
EXOSC9 degrades lncRNA TERRA in cell cycle-dependent manner for telomeric integrity
PMID: 37887339
4
EXOSC9 mutations cause PCH1D with cerebellar atrophy and motor neuronopathy, disrupting exosome complex
PMID: 29727687
5
EXOSC9 mutations result in PCH1D phenotype with variable severity
PMID: 30690203
6
Exosome mutations increase p53 levels and cause apoptosis, representing ribosomopathies
PMID: 32527837
Disease Associationsβ“˜21
pontocerebellar hypoplasia, type 1DOpen Targets
0.66Moderate
neurodegenerative diseaseOpen Targets
0.51Moderate
pontocerebellar hypoplasia type 1Open Targets
0.37Weak
pontocerebellar hypoplasiaOpen Targets
0.34Weak
Non-syndromic pontocerebellar hypoplasiaOpen Targets
0.34Weak
Abnormality of the skeletal systemOpen Targets
0.33Weak
Cerebral atrophyOpen Targets
0.27Weak
genetic disorderOpen Targets
0.19Weak
atrial fibrillationOpen Targets
0.09Suggestive
benign prostatic hyperplasiaOpen Targets
0.09Suggestive
cancerOpen Targets
0.09Suggestive
colorectal carcinomaOpen Targets
0.08Suggestive
breast cancerOpen Targets
0.07Suggestive
infectionOpen Targets
0.07Suggestive
actinic keratosisOpen Targets
0.06Suggestive
neoplasmOpen Targets
0.04Suggestive
ovarian neoplasmOpen Targets
0.04Suggestive
alcohol drinkingOpen Targets
0.04Suggestive
Otitis mediaOpen Targets
0.03Suggestive
acute myeloid leukemiaOpen Targets
0.03Suggestive
Pontocerebellar hypoplasia 1DUniProt
Pathogenic Variants31
NM_005033.3(EXOSC9):c.41T>C (p.Leu14Pro)Pathogenic
Pontocerebellar hypoplasia, type 1D|not provided|Cerebral atrophy|Pontoneocerebellar hypoplasia|Kabuki syndrome 2
β˜…β˜…β˜†β˜†2025β†’ Residue 14
NM_005033.3(EXOSC9):c.685C>T (p.Arg229Ter)Pathogenic
not provided|Pontocerebellar hypoplasia, type 1D
β˜…β˜…β˜†β˜†2025β†’ Residue 229
NM_005033.3(EXOSC9):c.634C>T (p.Arg212Ter)Pathogenic
not provided|Pontocerebellar hypoplasia, type 1D
β˜…β˜…β˜†β˜†2025β†’ Residue 212
NM_005033.3(EXOSC9):c.481C>T (p.Arg161Ter)Pathogenic
Pontocerebellar hypoplasia, type 1D|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 161
NM_005033.3(EXOSC9):c.283C>T (p.Gln95Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 95
NM_005033.3(EXOSC9):c.1034del (p.Asn345fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 345
NM_005033.3(EXOSC9):c.881_905dup (p.Pro302_Ile303insSerIleTer)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 302
NM_005033.3(EXOSC9):c.827+1G>ALikely pathogenic
Pontocerebellar hypoplasia, type 1D
β˜…β˜†β˜†β˜†2024
NM_005033.3(EXOSC9):c.1157-176delPathogenic
not provided
β˜…β˜†β˜†β˜†2024
NM_005033.3(EXOSC9):c.310C>T (p.Arg104Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 104
NM_005033.3(EXOSC9):c.1125_1126del (p.Gly376fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 376
NM_005033.3(EXOSC9):c.1151_1152insGGTTAGGTAGGTGACA (p.Ser384delinsArgValArgTer)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 384
NM_005033.3(EXOSC9):c.772_781del (p.Val258fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 258
NM_005033.3(EXOSC9):c.129del (p.Asp42_Tyr43insTer)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 42
NM_005033.3(EXOSC9):c.347_348del (p.Ile116fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 116
NM_005033.3(EXOSC9):c.968C>G (p.Ser323Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 323
NM_005033.3(EXOSC9):c.281+1G>TLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2023
NM_005033.3(EXOSC9):c.523-2A>GLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2023
NM_005033.3(EXOSC9):c.1062del (p.Lys355fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 355
NM_005033.3(EXOSC9):c.1058_1059del (p.Asp352_Ser353insTer)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 352
View on ClinVar β†—
Related Genes
MPHOSPH6Protein interaction100%C1DProtein interaction100%MTREXProtein interaction100%HBS1LProtein interaction99%DIS3L2Protein interaction97%ZFC3H1Protein interaction96%
Tissue Expression6 tissues
Bone Marrow
100%
Brain
26%
Heart
25%
Ovary
25%
Lung
23%
Liver
16%
Gene Interaction Network
Click a node to explore
EXOSC9MPHOSPH6C1DMTREXHBS1LDIS3L2ZFC3H1
PROTEIN STRUCTURE
Preparing viewer…
PDB9G8M Β· 3.30 Γ… Β· EM
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
1.12LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.80 [0.58–1.12]
RankingsWhere EXOSC9 stands among ~20K protein-coding genes
  • #3,618of 20,598
    Most Researched129 Β· top quartile
  • #1,778of 5,498
    Most Pathogenic Variants31
  • #11,551of 17,882
    Most Constrained (LOEUF)1.12
Genes detectedEXOSC9
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
The RNA Exosome and Human Disease.
PMID: 31768969
Methods Mol Biol Β· 2020
1.00
2
EXOSC9 depletion attenuates P-body formation, stress resistance, and tumorigenicity of cancer cells.
PMID: 32518284
Sci Rep Β· 2020
0.90
3
Pontocerebellar Hypoplasia Type 1 and Associated Neuronopathies.
PMID: 40428407
Genes (Basel) Β· 2025
0.80
4
Exosc9 Initiates SUMO-Dependent lncRNA TERRA Degradation to Impact Telomeric Integrity in Endocrine Therapy Insensitive Hormone Receptor-Positive Breast Cancer.
PMID: 37887339
Cells Β· 2023
0.70
5
Variants in EXOSC9 Disrupt the RNA Exosome and Result in Cerebellar Atrophy with Spinal Motor Neuronopathy.
PMID: 29727687
Am J Hum Genet Β· 2018
0.60