POMGNT2

Chr 3AR

protein O-linked mannose N-acetylglucosaminyltransferase 2 (beta 1,4-)

Also known as: AGO61, C3orf39, GTDC2, MDDGA8, MDDGC8

The encoded protein is an O-linked mannose beta-1,4-N-acetylglucosaminyltransferase that synthesizes phosphorylated O-mannosyl trisaccharides on alpha-dystroglycan, enabling high-affinity binding to laminin and other extracellular matrix proteins. Mutations cause autosomal recessive muscular dystrophy-dystroglycanopathy, ranging from severe congenital forms with brain and eye anomalies to milder limb-girdle presentations. The gene shows low constraint against loss-of-function variants, consistent with its recessive inheritance pattern.

OMIMResearchSummary from RefSeq, OMIM, UniProt
LOFmechanismARLOEUF 1.012 OMIM phenotypes
Clinical SummaryPOMGNT2
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Gene-Disease Validity (ClinGen)
myopathy caused by variation in POMGNT2 · ARDefinitive

Definitive — sufficient evidence for diagnostic panels

Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
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Clinical Trials
2 active or recruiting trials — potential therapeutic options may be available

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
1.01LOEUF
pLI 0.000
Z-score 1.53
OE 0.61 (0.381.01)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
0.95Z-score
OE missense 0.86 (0.790.94)
323 obs / 375.0 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.61 (0.381.01)
00.351.4
Missense OE0.86 (0.790.94)
00.61.4
Synonymous OE1.04
01.21.6
LoF obs/exp: 11 / 18.0Missense obs/exp: 323 / 375.0Syn Z: -0.39

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

POMGNT2 · protein map & ClinVar variants

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

3D Protein StructureAlphaFold
Clinical Literature
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