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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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ALG9
ALG9 alpha-1,2-mannosyltransferase
Chromosome 11 Β· 11q23.1
NCBI Gene: 79796Ensembl: ENSG00000086848.16HGNC: HGNC:15672UniProt: Q9H6U8
49PubMed Papers
22Diseases
0Drugs
36Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
dolichol-linked oligosaccharide biosynthetic processmembranedol-P-Man:Man(8)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activitydol-P-Man:Man(6)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activityALG9-congenital disorder of glycosylationALG9-associated autosomal dominant polycystic kidney diseaseAutosomal dominant polycystic kidney diseasecongenital disorder of glycosylation type I
✦AI Summary

ALG9 is an alpha-1,2-mannosyltransferase that catalyzes the sequential addition of mannose residues during dolichol-linked oligosaccharide biosynthesis, specifically adding the seventh and ninth alpha-1,2-linked mannose residues to Man(6)GlcNAc(2)-PP-dolichol and Man(8)GlcNAc(2)-PP-dolichol intermediates in the endoplasmic reticulum lumen 1. These lipid-linked oligosaccharides serve as glycan precursors for protein N-linked glycosylation, with the assembled 14-sugar oligosaccharides subsequently transferred to nascent proteins by oligosaccharyltransferases. ALG9 deficiency causes congenital disorder of glycosylation type IL (CDG-IL), characterized by accumulation of incomplete lipid-linked oligosaccharide intermediates and transfer of underglycosylated proteins 1. Biallelic ALG9 mutations present with severe neurological manifestations including developmental delay, seizures, hypotonia, and West syndrome 2. Monoallelic ALG9 loss-of-function variants are associated with autosomal dominant polycystic kidney disease (ADPKD) and autosomal dominant polycystic liver disease (ADPLD) 3, representing minor ADPKD genes (~0.6% of familial cystic disease) 4. The kidney phenotype is typically mild with limited progression to kidney failure 4, while liver cysts can develop as an extrarenal manifestation 5. Somatic loss of heterozygosity in hepatic cyst tissue suggests a two-hit mechanism in ADPLD pathogenesis 5. Additionally, ALG9 variants have been reported in cardiac manifestations of inherited carbohydrate metabolism disorders 6.

Sources cited
1
ALG9 catalyzes addition of seventh and ninth alpha-1,2-linked mannose residues; biallelic deficiency causes CDG-IL with accumulation of Man6GlcNAc2 and Man8GlcNAc2 intermediates and developmental abnormalities
PMID: 15148656
2
Homozygous ALG9 missense variants cause severe CDG-IL with developmental delay, seizures, West syndrome, brain and heart defects, and enhanced protein degradation
PMID: 35839600
3
Mutations in ALG9 and other ER protein biosynthetic pathway genes are associated with ADPKD via threshold model affecting polycystin dosage
PMID: 32690722
4
Monoallelic ALG9 loss-of-function variants occur in 0.6% of families with polycystic kidney/liver disease with mild kidney phenotype and rare CKD progression
PMID: 39899384
5
Heterozygous ALG9 pathogenic variants associate with ADPLD without kidney involvement; somatic loss of heterozygosity occurs in liver cyst epithelium
PMID: 37761895
6
ALG9 is among congenital glycosylation disorder genes presenting with cardiac manifestations in inherited carbohydrate metabolism disorders
PMID: 37239976
Disease Associationsβ“˜22
ALG9-congenital disorder of glycosylationOpen Targets
0.83Strong
ALG9-associated autosomal dominant polycystic kidney diseaseOpen Targets
0.59Moderate
Autosomal dominant polycystic kidney diseaseOpen Targets
0.57Moderate
congenital disorder of glycosylation type IOpen Targets
0.46Moderate
neurodegenerative diseaseOpen Targets
0.46Moderate
congenital disorder of glycosylationOpen Targets
0.42Moderate
autosomal dominant polycystic liver diseaseOpen Targets
0.38Weak
Isolated polycystic liver diseaseOpen Targets
0.38Weak
cystic kidney diseaseOpen Targets
0.37Weak
cystic liver diseaseOpen Targets
0.37Weak
developmental disabilityOpen Targets
0.37Weak
familial cystic renal diseaseOpen Targets
0.37Weak
Non-immune hydrops fetalisOpen Targets
0.37Weak
genetic disorderOpen Targets
0.19Weak
cholelithiasisOpen Targets
0.19Weak
congenital disorder of glycosylation type IIOpen Targets
0.18Weak
breast cancerOpen Targets
0.17Weak
spinal cord diseaseOpen Targets
0.15Weak
goutOpen Targets
0.12Weak
Increased blood pressureOpen Targets
0.11Weak
Congenital disorder of glycosylation 1LUniProt
Gillessen-Kaesbach-Nishimura syndromeUniProt
Pathogenic Variants36
NM_024740.2(ALG9):c.1225del (p.Arg409fs)Pathogenic
not provided|ALG9-associated autosomal dominant polycystic kidney disease
β˜…β˜…β˜†β˜†2026β†’ Residue 409
NM_024740.2(ALG9):c.427C>T (p.Arg143Ter)Pathogenic
ALG9 congenital disorder of glycosylation|ALG9-associated autosomal dominant polycystic kidney disease|Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜…β˜†β˜†2026β†’ Residue 143
NM_024740.2(ALG9):c.860A>G (p.Tyr287Cys)Pathogenic
ALG9 congenital disorder of glycosylation|ALG9-related disorder|Gillessen-Kaesbach-Nishimura syndrome;ALG9 congenital disorder of glycosylation
β˜…β˜…β˜†β˜†2025β†’ Residue 287
NM_024740.2(ALG9):c.566-1G>APathogenic
ALG9 congenital disorder of glycosylation|ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome|ALG9-related disorder|not provided
β˜…β˜…β˜†β˜†2025
NM_024740.2(ALG9):c.896-2A>GLikely pathogenic
ALG9 congenital disorder of glycosylation|Gillessen-Kaesbach-Nishimura syndrome;ALG9 congenital disorder of glycosylation
β˜…β˜…β˜†β˜†2024
NM_024740.2(ALG9):c.744G>A (p.Trp248Ter)Pathogenic
ALG9 congenital disorder of glycosylation|ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 248
NM_024740.2(ALG9):c.522del (p.Ala175fs)Likely pathogenic
ALG9-related disorder|ALG9-associated autosomal dominant polycystic kidney disease
β˜…β˜†β˜†β˜†2026β†’ Residue 175
NM_024740.2(ALG9):c.511C>T (p.Arg171Ter)Likely pathogenic
ALG9 congenital disorder of glycosylation
β˜…β˜†β˜†β˜†2025β†’ Residue 171
NM_024740.2(ALG9):c.1695G>A (p.Trp565Ter)Pathogenic
Familial cystic renal disease
β˜…β˜†β˜†β˜†2025β†’ Residue 565
NM_024740.2(ALG9):c.761G>A (p.Trp254Ter)Pathogenic
Autosomal dominant polycystic kidney disease
β˜…β˜†β˜†β˜†2025β†’ Residue 254
NM_024740.2(ALG9):c.1163_1164del (p.Ser388fs)Pathogenic
ALG9-related disorder|ALG9-associated autosomal dominant polycystic kidney disease
β˜…β˜†β˜†β˜†2025β†’ Residue 388
NM_024740.2(ALG9):c.213T>A (p.Cys71Ter)Likely pathogenic
ALG9-associated autosomal dominant polycystic kidney disease
β˜…β˜†β˜†β˜†2025β†’ Residue 71
NM_024740.2(ALG9):c.100C>T (p.Arg34Ter)Pathogenic
ALG9 congenital disorder of glycosylation
β˜…β˜†β˜†β˜†2024β†’ Residue 34
NM_024740.2(ALG9):c.126del (p.Thr43fs)Pathogenic
ALG9 congenital disorder of glycosylation
β˜…β˜†β˜†β˜†2024β†’ Residue 43
NM_024740.2(ALG9):c.1534G>T (p.Gly512Ter)Pathogenic
ALG9-associated autosomal dominant polycystic kidney disease
β˜…β˜†β˜†β˜†2024β†’ Residue 512
NM_024740.2(ALG9):c.1441C>T (p.Arg481Ter)Pathogenic
ALG9 congenital disorder of glycosylation
β˜…β˜†β˜†β˜†2024β†’ Residue 481
NM_024740.2(ALG9):c.704del (p.Leu235fs)Likely pathogenic
ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜†β˜†β˜†2024β†’ Residue 235
NM_024740.2(ALG9):c.1324+2T>CLikely pathogenic
ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜†β˜†β˜†2024
NM_024740.2(ALG9):c.789+1G>ALikely pathogenic
ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜†β˜†β˜†2024
NM_024740.2(ALG9):c.1209dup (p.Val404fs)Likely pathogenic
ALG9 congenital disorder of glycosylation;Gillessen-Kaesbach-Nishimura syndrome
β˜…β˜†β˜†β˜†2024β†’ Residue 404
View on ClinVar β†—
Related Genes
DPAGT1Shared pathway100%ALG11Shared pathway100%ALG14Shared pathway100%ALG10BShared pathway100%RFT1Shared pathway100%ALG10Shared pathway100%
Tissue Expression6 tissues
Ovary
100%
Brain
99%
Liver
90%
Bone Marrow
85%
Heart
57%
Lung
57%
Gene Interaction Network
Click a node to explore
ALG9DPAGT1ALG11ALG14ALG10BRFT1ALG10
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q9H6U8
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.85LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.68 [0.55–0.85]
RankingsWhere ALG9 stands among ~20K protein-coding genes
  • #8,906of 20,598
    Most Researched49
  • #1,656of 5,498
    Most Pathogenic Variants36
  • #7,425of 17,882
    Most Constrained (LOEUF)0.85
Genes detectedALG9
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Insights into Autosomal Dominant Polycystic Kidney Disease from Genetic Studies.
PMID: 32690722
Clin J Am Soc Nephrol Β· 2021
1.00
2
Monoallelic IFT140 pathogenic variants are an important cause of the autosomal dominant polycystic kidney-spectrum phenotype.
PMID: 34890546
Am J Hum Genet Β· 2022
0.90
3
Exome Sequencing of a Clinical Population for Autosomal Dominant Polycystic Kidney Disease.
PMID: 36573973
JAMA Β· 2022
0.80
4
Metabolic Cardiomyopathies and Cardiac Defects in Inherited Disorders of Carbohydrate Metabolism: A Systematic Review.
PMID: 37239976
Int J Mol Sci Β· 2023
0.70
5
Characterization of the Cystic Phenotype Associated with Monoallelic ALG8 and ALG9 Pathogenic Variants.
PMID: 39899384
J Am Soc Nephrol Β· 2025
0.60