ALG8 p.Thr47=
c.141T>C · VCV3905104
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.00186%, 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 1.8 | phastCons 1 |
| Overall | ||
| CADD | 10.82 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.00186%
European (non-Finnish) · 22/1,179,924 alleles
Filtering AF
0.00122%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 0.00104%
Overall
0.00151%
22/1,461,722 alleles · very rare
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
- ALG8
- Protein
- p.Thr47=
- Coding
- c.141T>C
- MANE Select
- NM_024079
- Type
- single nucleotide variant
- Location
- chr11:78127391 (GRCh38)
- Gene constraint
- LOEUF 0.909 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 92.07
- Residue 47
- a UniProt-annotated variant site (in cdg1h; decreased dolichyl pyrophosphate glc1man9glcnac2 alpha-1,3-glucosyltransferase activity)
Similar variants
- ALG8 p.Thr47Ser Uncertain significance ★★ ⚠ same residue
- ALG8 p.Thr47Pro Pathogenic ★ same residue
- ALG8 p.Thr47dup Uncertain significance same residue
- ALG8 c.368+2T>G Likely pathogenic ★★ same type
- ALG8 c.674-2A>G Likely pathogenic ★★ same type
- ALG8 c.777+1G>A Likely pathogenic ★★ same type
- ALG8 c.95+1G>A Likely pathogenic ★★ same type
- ALG8 p.Arg179Ter Pathogenic/Likely pathogenic ★★ 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/alg8-p-thr47 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown