Is CFAP210 p.Ala405Val (c.1214C>T) pathogenic?

CFAP210 p.Ala405Val (c.1214C>T) is classified Uncertain significance in CFAP210 (ClinVar, Single submitter, 1 submitter; last evaluated 2023-06-29). Ultra-rare (popmax 0.0245%, eas).

How common is CFAP210 p.Ala405Val (c.1214C>T) in the general population?

CFAP210 p.Ala405Val (c.1214C>T) is ultra-rare (popmax 0.0245%, eas) (gnomAD).

CFAP210 p.Ala405Val

c.1214C>T · rs61754930 · VCV2600589

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

gnomAD v4.1

Rare

ultra-rare (popmax 0.0245%, eas)

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
REVEL	0.058	moderately benign-leaning
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 8.3	GERP 0.7, phastCons 1
Regional constraint	o/e 0.95	unconstrained · MANE · 48 kb · p 0.24 · regional, not allelic
Overall
CADD	21.7	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0245% East Asian · 11/44,856 alleles

Filtering AF 0.0137% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0106%

Overall 0.000682% 11/1,613,600 alleles · ultra-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: CFAP210
Protein: p.Ala405Val
Coding: c.1214C>T
MANE Select: NM_001085447
dbSNP: rs61754930
Type: single nucleotide variant
Location: chr2:169649285 (GRCh38)
Structure: AlphaFold pLDDT 81.20 · 2 PDB
Residue 405: the trichohyalin-plectin-homology domain

Full CFAP210 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Similar variants

CFAP210 p.Ala196Thr Uncertain significance ★ same type
CFAP210 p.Ala349Gly Uncertain significance ★ same type
CFAP210 p.Ala372Gly Uncertain significance ★ same type
CFAP210 p.Ala382Val Uncertain significance ★ same type
CFAP210 p.Ala446Glu Uncertain significance ★ same type
CFAP210 p.Ala462Thr Uncertain significance ★ same type
CFAP210 p.Arg111His Uncertain significance ★ same type
CFAP210 p.Arg134Lys 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/cfap210-p-ala405val (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown