EEF1A2 p.Ala176=
c.528C>T · rs750408079 · VCV1746613
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.00167%, amr)
Conditions
1
Inborn genetic diseases
Computational evidence
| Protein change | ||
| Missense predictors do not apply to this variant type; conservation carries the signal. | ||
| Splicing | ||
| SpliceAI | <0.2 | no splice effect predicted · four deltas, not one · how we know |
|---|---|---|
| Constraint at this position | ||
| Conservation | phyloP 5.8 | GERP 1.9, phastCons 1 |
| Overall | ||
| CADD | 12.84 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.00167%
Admixed American · 1/60,024 alleles
Overall
6.2e-05%
1/1,612,794 alleles · very rare
exomes 1/1,460,448 · genomes 0/152,346 · joint denominator
Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.
Variant & gene context
- Gene
- EEF1A2
- Protein
- p.Ala176=
- Coding
- c.528C>T
- MANE Select
- NM_001958
- dbSNP
- rs750408079
- Type
- single nucleotide variant
- Location
- chr20:63494898 (GRCh38)
- Gene constraint
- LOEUF 0.314 · pLI 1.00 · ClinGen HI 0/3 (gnomAD)
- Structure
- AlphaFold pLDDT 88.70 · 2 PDB
- Residue 176
- the tr-type g domain; an α-helix
Similar variants
- EEF1A2 p.Ala176Thr Benign/Likely benign ★★ same residue
- EEF1A2 p.Ala117Val Uncertain significance ★★ ⚠ same condition
- EEF1A2 p.Arg247Cys Uncertain significance ★★ ⚠ same condition
- EEF1A2 p.Gly397Glu Uncertain significance ★★ ⚠ same condition
- EEF1A2 p.Lys179Arg Uncertain significance ★★ ⚠ same condition
- EEF1A2 p.Val150Met Uncertain significance ★★ ⚠ same condition
- EEF1A2 p.Ala117= Benign/Likely benign ★★ same condition
- EEF1A2 p.Ala125= Benign/Likely benign ★★ 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/eef1a2-p-ala176 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown