CYP4V2 p.Pro369=
c.1107C>T · rs532572776 · VCV2172476
Likely benign
Single submitter
Classification
Likely benign
ClinVar
Review
Single submitter ★☆☆☆
ClinVar · 1 submitter
gnomAD v4.1
Rare
very rare (popmax 0.00266%, 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 -0.51 | GERP -3.1, phastCons 0.048 |
| Overall | ||
| CADD | 4.431 | PHRED · no single calibrated threshold — expert panels disagree |
Population frequency
gnomAD v4.1 · exomes + genomes
Grpmax group
0.00266%
African / African-American · 2/75,048 alleles
Filtering AF
0.000442%
ClinGen BA1/BS1 input
FAF95, joint · FAF99 0.000312%
Overall
0.000867%
14/1,614,196 alleles · very rare
| Ancestry group | Frequency | 1 in |
|---|---|---|
| African / African-Americangrpmax | 0.00266% | 37,524 |
| East Asian | 0.00223% | 44,880 |
| South Asian | 0.0011% | 91,076 |
| European (non-Finnish) | 0.000847% | 118,004 |
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
- CYP4V2
- Protein
- p.Pro369=
- Coding
- c.1107C>T
- MANE Select
- NM_207352
- dbSNP
- rs532572776
- Type
- single nucleotide variant
- Location
- chr4:186208881 (GRCh38)
- Gene constraint
- LOEUF 1.126 · pLI <0.01 · ClinGen HI gene assoc. with recessive phenotype (gnomAD)
- Structure
- AlphaFold pLDDT 91.05
Similar variants
- CYP4V2 c.1091-2A>G Pathogenic/Likely pathogenic ★★ same type
- CYP4V2 c.413+1G>A Likely pathogenic ★★ same type
- CYP4V2 c.414-1G>A Pathogenic/Likely pathogenic ★★ same type
- CYP4V2 c.801+1G>A Pathogenic ★★ same type
- CYP4V2 p.Arg232Ter Pathogenic ★★ same type
- CYP4V2 p.Arg390Cys Pathogenic ★★ same type
- CYP4V2 p.Arg390His Pathogenic/Likely pathogenic ★★ same type
- CYP4V2 p.Arg390Leu 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/cyp4v2-p-pro369 (accessed [today's date]).
Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown