PCDH15

Chr 10ARDigenic recessive

protocadherin related 15

Also known as: CDHR15, DFNB23, USH1F

This calcium-dependent cell-adhesion protein is essential for maintenance of normal retinal and cochlear function. Mutations cause autosomal recessive deafness and Usher syndrome type 1F, which involves congenital profound hearing loss combined with progressive vision loss due to retinitis pigmentosa. The gene is extremely intolerant to loss-of-function variants, indicating its critical role in sensory organ development and function.

OMIMResearchSummary from RefSeq, OMIM, UniProt
LOFmechanismAR/Digenic recessiveLOEUF 0.793 OMIM phenotypes
Clinical SummaryPCDH15
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Gene-Disease Validity (ClinGen)
nonsyndromic genetic hearing loss · ARLimited

Limited evidence — not for standalone diagnostic reporting

2 total gene-disease associations curated

Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
0.79LOEUF
pLI 0.000
Z-score 3.11
OE 0.63 (0.500.79)
Tolerant

Typical tolerance to LoF variation

Missense Constraint
-1.68Z-score
OE missense 1.15 (1.091.20)
1196 obs / 1043.6 exp
Tolerant

Tolerant to missense variation

Observed / Expected Ratios
LoF OE0.63 (0.500.79)
00.351.4
Missense OE1.15 (1.091.20)
00.61.4
Synonymous OE1.12
01.21.6
LoF obs/exp: 52 / 82.5Missense obs/exp: 1196 / 1043.6Syn Z: -1.87
Curated Mechanism (G2P)Gene2Phenotype (DDG2P) ↗
definitivePCDH15-related Usher syndromeLOFAR

Predictions shown for reference only — model trained on dominant genes, not applicable to AR conditions.

DN
0.79top 25%
GOF
0.81top 10%
LOF
0.2871th %ile

The Badonyi & Marsh prediction model was trained exclusively on dominant disease genes. Predictions are not reliable for genes with autosomal recessive inheritance and are shown at reduced opacity for reference only.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

PCDH15 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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