Is ENG p.Ala303Ser (c.907G>T) pathogenic?

ENG p.Ala303Ser (c.907G>T) is classified Uncertain significance in ENG (ClinVar, Single submitter, 1 submitter; last evaluated 2026-04-23). AlphaMissense: ambiguous (0.3473); Absent from gnomAD v4.1; Associated with Cardiovascular phenotype.

What condition is associated with ENG p.Ala303Ser (c.907G>T)?

ENG p.Ala303Ser (c.907G>T) is associated with Cardiovascular phenotype (ClinVar).

How common is ENG p.Ala303Ser (c.907G>T) in the general population?

ENG p.Ala303Ser (c.907G>T) is absent from gnomAD v4.1 (gnomAD).

What do computational predictors say about ENG p.Ala303Ser (c.907G>T)?

AlphaMissense predicts ambiguous (score 0.3473) — an in-silico prediction, not a clinical call.

ENG p.Ala303Ser

c.907G>T · VCV4870457

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

ambiguous

0.3473 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Conditions

Cardiovascular phenotype

Computational evidence

Protein change
AlphaMissense	0.3473	ambiguous
REVEL	0.411	indeterminate
SaProt	LLR -9.53	tolerated
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 7.5	GERP 1.6, phastCons 1
Regional constraint	o/e 0.86	unconstrained · MANE · 39 kb · p 5.2e-05 · regional, not allelic
Overall
CADD	24.2	PHRED · no single calibrated threshold — expert panels disagree

AlphaMissense carries the ACMG weight for missense; REVEL and SaProt are independent agreement signals.

Population frequency

gnomAD v4.1 · exomes + genomes

Absent from gnomAD v4.1. Not observed in any sequenced alleles — a rarity signal (ACMG PM2-supporting), not evidence of pathogenicity on its own.

Variant & gene context

Gene: ENG
Protein: p.Ala303Ser
Coding: c.907G>T
MANE Select: NM_001114753
Type: single nucleotide variant
Location: chr9:127824884 (GRCh38)
Gene constraint: LOEUF 0.374 · pLI 1.00 · ClinGen HI 3/3 (gnomAD)
Structure: AlphaFold pLDDT 80.84 · 3 PDB
Residue 303: an α-helix; a disulfide bond; the 'required for interaction with gdf2' region; the 'or1, c-terminal part' region

Full ENG gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Cardiovascular phenotype — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

ENG p.Ala303Asp Uncertain significance ★★ ⚠ same residue
ENG p.Ala303Val Uncertain significance ★ same residue
ENG p.Ala303= Benign/Likely benign ★★ same residue
ENG c.1134+1G>T Pathogenic/Likely pathogenic ★★ same condition
ENG c.1311+2T>A Pathogenic ★★ same condition
ENG c.1428+1G>A Pathogenic/Likely pathogenic ★★ same condition
ENG c.1687-1G>A Pathogenic/Likely pathogenic ★★ same condition
ENG c.219+1G>A Pathogenic ★★ same condition

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/eng-p-ala303ser (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown