MOGS p.Ala470=
c.1410C>T · VCV4955761
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 8.47e-05%, nfe)
Computational evidence
| Protein change | ||
| Missense predictors do not apply to this variant type; conservation carries the signal. | ||
| Splicing | ||
| SpliceAI | — | not assessed · no allele here is in the release |
|---|---|---|
| Constraint at this position | ||
| Conservation | phyloP 2.9 | GERP -0.71, phastCons 1 |
| Overall | ||
| CADD | 9.14 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
8.47e-05%
European (non-Finnish) · 1/1,180,008 alleles
Overall
6.2e-05%
1/1,614,092 alleles · very rare
exomes 1/1,461,790 · genomes 0/152,302 · 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
- MOGS
- Protein
- p.Ala470=
- Coding
- c.1410C>T
- MANE Select
- NM_006302
- Type
- single nucleotide variant
- Location
- chr2:74462379 (GRCh38)
- Gene constraint
- LOEUF 0.85 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 92.42
Similar variants
- MOGS p.Arg495Ter Pathogenic/Likely pathogenic ★★ same type
- MOGS p.Gln124Ter Pathogenic ★★ same type
- MOGS p.Gln505Ter Pathogenic/Likely pathogenic ★★ same type
- MOGS p.Ala22Glu Uncertain significance ★★ ⚠ same type
- MOGS p.Ala292Asp Uncertain significance ★★ ⚠ same type
- MOGS p.Ala292Pro Uncertain significance ★★ ⚠ same type
- MOGS p.Ala41Val Uncertain significance ★★ ⚠ same type
- MOGS p.Ala510Thr Uncertain significance ★★ ⚠ same type
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/mogs-p-ala470 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown