CHRNG p.Pro364=
c.1092G>A · rs144846001 · VCV2867042
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
ultra-rare (popmax 0.0586%, afr)
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 -5.6 | GERP -3.5 |
| Overall | ||
| CADD | 0.153 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.0586%
African / African-American · 44/75,062 alleles
Filtering AF
0.0448%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 0.04%
Overall
0.00477%
77/1,613,608 alleles · ultra-rare
| Ancestry group | Frequency | 1 in |
|---|---|---|
| African / African-Americangrpmax | 0.0586% | 1,706 |
| Admixed American | 0.0117% | 8,576 |
| Remaining individualsnot grpmax-eligible | 0.0032% | 31,252 |
| East Asian | 0.00223% | 44,866 |
| European (non-Finnish) | 0.00186% | 53,636 |
| Finnishnot grpmax-eligible | 0.00158% | 63,484 |
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
- CHRNG
- Protein
- p.Pro364=
- Coding
- c.1092G>A
- MANE Select
- NM_005199
- dbSNP
- rs144846001
- Type
- single nucleotide variant
- Location
- chr2:232544423 (GRCh38)
- Gene constraint
- LOEUF 1.286 · pLI <0.01 (gnomAD)
- Structure
- AlphaFold pLDDT 81.91
Similar variants
- CHRNG c.1380+1G>A Pathogenic/Likely pathogenic ★★ same type
- CHRNG c.350+2T>C Pathogenic/Likely pathogenic ★★ same type
- CHRNG c.351-2A>G Likely pathogenic ★★ same type
- CHRNG c.56-1G>A Pathogenic ★★ same type
- CHRNG c.805+1G>A Likely pathogenic ★★ same type
- CHRNG p.Arg239Cys Pathogenic ★★ same type
- CHRNG p.Arg341Ter Pathogenic/Likely pathogenic ★★ same type
- CHRNG p.Arg46Ter 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/chrng-p-pro364 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown