GALNT1

Chr 18

polypeptide N-acetylgalactosaminyltransferase 1

Also known as: GALNAC-T1

This enzyme catalyzes the initial step in mucin-type O-linked glycosylation by transferring N-acetyl-D-galactosamine to serine and threonine residues on target proteins in the Golgi apparatus. Mutations cause autosomal recessive intellectual disability with distinctive facial features and behavioral abnormalities. The gene is moderately constrained against loss-of-function variants.

OMIMResearchSummary from RefSeq, UniProt
LOEUF 0.59
Clinical SummaryGALNT1
Population Constraint (gnomAD)
Constrained for loss-of-function variants (OE-LoF 0.35) despite low pLI — interpret in context.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Moderate LoF intolerance
LoF Constraint
0.59LOEUF
pLI 0.002
Z-score 3.26
OE 0.35 (0.210.59)
Moderately constrained

More LoF-intolerant than ~75% of genes

Missense Constraint
2.52Z-score
OE missense 0.59 (0.520.67)
174 obs / 295.9 exp
Mild constraint

Moderately missense-constrained (top ~2.5%)

Observed / Expected Ratios
LoF OE0.35 (0.210.59)
00.351.4
Missense OE0.59 (0.520.67)
00.61.4
Synonymous OE0.85
01.21.6
LoF obs/exp: 10 / 28.9Missense obs/exp: 174 / 295.9Syn Z: 1.15

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

GALNT1 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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