CDH23 — 5876 ClinVar variants

All ClinVar germline CDH23 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 1336 flagged for review →

290 Pathogenic · 97 Pathogenic/Likely pathogenic · 303 Likely pathogenic · 338 Conflicting · 229 Benign · 68 Benign/Likely benign · 2490 Likely benign · 2061 Uncertain significance

Full CDH23 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 1336

Variants where the independent computational evidence doesn't line up with the clinical picture — a QC signal for a second look, not a reclassification.

Predictors vs ClinVar 6

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 116

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 1081

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 1081

Predictors split 133

The independent predictors disagree with each other — read with care.

All CDH23 variants

Pathogenic 290

Pathogenic/Likely pathogenic 97

  • c.1143_1176del Multiple submitters Usher syndrome type 1D
  • c.1449+1G>T Multiple submitters Usher syndrome
  • c.2177-2A>G Multiple submitters pituitary adenoma 5, multiple types
  • c.2289+1G>C Multiple submitters pituitary adenoma 5, multiple types
  • c.2398-1G>T Multiple submitters Usher syndrome type 1D
  • c.288+2T>C Multiple submitters pituitary adenoma 5, multiple types
  • c.2953+1G>A Multiple submitters pituitary adenoma 5, multiple types
  • c.3579+2T>C Multiple submitters Usher syndrome
  • c.4105-4_4105-2delinsTCT Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.4488+2T>A Multiple submitters pituitary adenoma 5, multiple types
  • c.5712+1G>A Multiple submitters pituitary adenoma 5, multiple types
  • c.6050-15G>A Multiple submitters Usher syndrome type 1D
  • c.6050-1G>A Multiple submitters inherited retinal dystrophy
  • c.6050-1G>C Multiple submitters Usher syndrome type 1
  • c.6253+1G>A Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.6253+2T>C Multiple submitters Usher syndrome type 1
  • c.6712+1G>A Multiple submitters Usher syndrome type 1D
  • c.7483-1G>C Multiple submitters Rare genetic deafness
  • c.7872+1G>C Multiple submitters pituitary adenoma 5, multiple types
  • c.8064+1G>A Multiple submitters Usher syndrome
  • c.8064+1G>T Multiple submitters pituitary adenoma 5, multiple types
  • c.8308+1G>A Multiple submitters Usher syndrome type 1D
  • c.9280_9286del Multiple submitters Usher syndrome type 1D
  • c.9319+1G>C Multiple submitters Usher syndrome type 1
  • c.9381-2A>G Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ala2146fs Multiple submitters inherited retinal dystrophy
  • p.Ala2232_Val2233insTer Multiple submitters pituitary adenoma 5, multiple types
  • p.Ala2309fs Multiple submitters Usher syndrome type 1
  • p.Arg1236Ter Multiple submitters Rare genetic deafness
  • p.Arg1771Ter Multiple submitters Usher syndrome type 1
  • p.Arg2115fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Arg269Trp Multiple submitters pituitary adenoma 5, multiple types
  • p.Arg2795Ter Multiple submitters Usher syndrome type 1
  • p.Arg3096fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Arg3186Ter Multiple submitters Rare genetic deafness
  • p.Asn1521Ser Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Asn2605Ser Multiple submitters pituitary adenoma 5, multiple types
  • p.Asn393fs Multiple submitters Usher syndrome type 1
  • p.Asp1341Asn Multiple submitters Prelingual sensorineural hearing impairment
  • p.Asp2028Ala Multiple submitters Usher syndrome
  • p.Asp2045Asn Multiple submitters Usher syndrome
  • p.Asp2148Asn Multiple submitters Usher syndrome
  • p.Asp2202Asn Multiple submitters pituitary adenoma 5, multiple types
  • p.Asp918Asn Multiple submitters pituitary adenoma 5, multiple types
  • p.Asp990Asn Multiple submitters pituitary adenoma 5, multiple types
  • p.Gln2733Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Gln462fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Gln579Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Gln631Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Glu1006Lys Multiple submitters Monogenic hearing loss
  • p.Glu1071Lys Multiple submitters Usher syndrome
  • p.Glu1257Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Glu1749Ter Multiple submitters Usher syndrome type 1
  • p.Glu1753Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Glu1917Lys Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Glu2438Lys Multiple submitters autosomal recessive nonsyndromic hearing loss 12 ⚠
  • p.Gly2017Ser Multiple submitters Rare genetic deafness ⚠
  • p.Gly2150fs Multiple submitters Usher syndrome type 1
  • p.Gly2156fs Multiple submitters Usher syndrome type 1
  • p.Gly2783fs Multiple submitters Usher syndrome type 1
  • p.Gly291Arg Multiple submitters pituitary adenoma 5, multiple types
  • p.Gly291Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.His1769fs Multiple submitters Usher syndrome
  • p.Leu1978fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu2315fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu2335fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu286fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu305fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu3085fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Leu826fs Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Lys2278fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Lys975fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Phe2664del Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Phe3125fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Phe995fs Multiple submitters
  • p.Pro3059fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Pro346Leu Multiple submitters Usher syndrome type 1
  • p.Pro346Ser Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ser166fs Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ser3157fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Ser384Arg Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Thr1708_Leu1709insTer Multiple submitters pituitary adenoma 5, multiple types
  • p.Thr188fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Thr1904= Multiple submitters pituitary adenoma 5, multiple types
  • p.Thr2425fs Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Thr2454= Multiple submitters Rare genetic deafness
  • p.Thr477fs Multiple submitters Inborn genetic diseases
  • p.Thr777fs Multiple submitters Usher syndrome type 1
  • p.Tyr1621Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Tyr1942Ter Multiple submitters Usher syndrome type 1
  • p.Tyr2519Ter Multiple submitters Usher syndrome type 1D
  • p.Tyr2633Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Tyr2949Ter Multiple submitters Usher syndrome type 1
  • p.Tyr783Ter Multiple submitters pituitary adenoma 5, multiple types
  • p.Val2635fs Multiple submitters pituitary adenoma 5, multiple types
  • p.Val2737fs Multiple submitters Usher syndrome type 1D
  • p.Val363fs Multiple submitters Usher syndrome type 1

Likely pathogenic 303

Showing the top 300 by review status; the full set is in the sitemap.

Conflicting classifications of pathogenicity 338

Showing the top 300 by review status; the full set is in the sitemap.

Benign 229

Benign/Likely benign 68

  • c.1134+13A>G Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.1134+22C>T Multiple submitters
  • c.1449+74G>T Multiple submitters
  • c.1449+76C>A Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.1987-123G>A Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.2289+125G>A Multiple submitters
  • c.3431-133T>C Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.3431-205A>C Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.4210-14A>C Multiple submitters
  • c.4210-7C>T Multiple submitters Usher syndrome type 1D
  • c.429+18T>C Multiple submitters Usher syndrome type 1D
  • c.4846-19G>C Multiple submitters pituitary adenoma 5, multiple types
  • c.4846-79G>A Multiple submitters Usher syndrome type 1D
  • c.6049+18C>G Multiple submitters
  • c.624+64C>T Multiple submitters pituitary adenoma 5, multiple types
  • c.67+19G>A Multiple submitters
  • c.7660+13C>T Multiple submitters
  • c.9319+11G>A Multiple submitters Usher syndrome type 1D
  • c.9510+13C>T Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.-258G>A Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.-45AGGCG[2] Multiple submitters
  • c.-45AGGCG[4] Multiple submitters
  • c.*173C>T Multiple submitters Usher syndrome type 1D
  • c.*204A>G Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • c.*349A>G Multiple submitters Usher syndrome type 1D
  • c.*510G>A Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ala1222Thr Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ala3005Gly Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ala3068= Multiple submitters Usher syndrome type 1
  • p.Ala3146= Multiple submitters
  • p.Ala409= Multiple submitters
  • p.Arg1437Gln Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Arg1804Gln Multiple submitters retinitis pigmentosa-deafness syndrome
  • p.Arg2066Gln Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Arg2358Gln Multiple submitters Usher syndrome type 1D
  • p.Arg2489= Multiple submitters Usher syndrome type 1D
  • p.Arg3Cys Multiple submitters Usher syndrome type 1D
  • p.Asn1098Ser Multiple submitters retinitis pigmentosa-deafness syndrome
  • p.Asn1847= Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Asn3326= Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Asp1806Glu Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Asp2858= Multiple submitters
  • p.Asp2936= Multiple submitters
  • p.Asp3253Ala Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Gln58Arg Multiple submitters Usher syndrome type 1D
  • p.Glu2044Lys Multiple submitters retinitis pigmentosa-deafness syndrome
  • p.Gly2752= Multiple submitters Usher syndrome type 1
  • p.Gly68= Multiple submitters Usher syndrome type 1D
  • p.Ile2164= Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Ile2199Asn Multiple submitters Usher syndrome type 1
  • p.Leu986= Multiple submitters Usher syndrome type 1D
  • p.Phe3125Leu Multiple submitters retinitis pigmentosa-deafness syndrome ⚠
  • p.Pro1429= Multiple submitters
  • p.Pro2380Leu Multiple submitters retinitis pigmentosa-deafness syndrome
  • p.Pro2707= Multiple submitters Usher syndrome type 1D
  • p.Pro2707Leu Multiple submitters
  • p.Ser496Asn Multiple submitters Usher syndrome type 1D
  • p.Thr1887Ile Multiple submitters Inborn genetic diseases
  • p.Thr3291= Multiple submitters Usher syndrome type 1D
  • p.Thr474= Multiple submitters
  • p.Thr731= Multiple submitters Usher syndrome type 1
  • p.Tyr470= Multiple submitters Usher syndrome type 1
  • p.Tyr927= Multiple submitters
  • p.Val1620Met Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Val1807Met Multiple submitters
  • p.Val2283Ile Multiple submitters autosomal recessive nonsyndromic hearing loss 12
  • p.Val475Met Multiple submitters Usher syndrome type 1D
  • p.Val66= Multiple submitters Usher syndrome type 1D

Likely benign 2490

Showing the top 300 by review status; the full set is in the sitemap.

Uncertain significance 2061

Showing the top 300 by review status; the full set is in the sitemap.