CHD7 — 4408 ClinVar variants

All ClinVar germline CHD7 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 1167 flagged for review →

604 Pathogenic · 40 Pathogenic/Likely pathogenic · 203 Likely pathogenic · 482 Conflicting · 238 Benign · 117 Benign/Likely benign · 1110 Likely benign · 1614 Uncertain significance

Full CHD7 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 1167

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 agree, ClinVar conflicts 213

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification. · showing the 150 best-reviewed of 213

Predicted LoF vs a conflicting call 3

ClinVar submitters conflict, and it's a predicted loss-of-function change in a gene where LoF causes disease — flagged for review, not resolved (verify NMD-escape for C-terminal truncations). Non-missense.

Predictors lean, ClinVar uncertain 844

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 844

Predictors split 99

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

All CHD7 variants

Pathogenic 604

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

Pathogenic/Likely pathogenic 40

Likely pathogenic 203

Conflicting classifications of pathogenicity 482

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

Benign 238

Benign/Likely benign 117

  • c.1666-15A>G Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.2096+21dup Multiple submitters CHARGE syndrome
  • c.2376+43_2376+48dup Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.2377-3dup Multiple submitters CHARGE syndrome
  • c.2614-14del Multiple submitters
  • c.2835+18G>C Multiple submitters CHARGE syndrome
  • c.2835+24A>T Multiple submitters
  • c.3202-5T>C Multiple submitters CHARGE syndrome
  • c.3379-33A>G Multiple submitters
  • c.3522+13T>A Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.3778+17C>T Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.4851-31C>T Multiple submitters
  • c.5051-25A>G Multiple submitters
  • c.5051-4C>T Multiple submitters CHARGE syndrome
  • c.5211-18C>T Multiple submitters CHARGE syndrome
  • c.5300+8C>T Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.5665+11A>G Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • c.7165-5A>G Multiple submitters CHARGE syndrome
  • p.Ala1919= Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ala2160Thr Multiple submitters Inborn genetic diseases
  • p.Ala2680= Multiple submitters CHARGE syndrome
  • p.Ala2730Thr Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ala2830Thr Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ala2923= Multiple submitters Inborn genetic diseases
  • p.Ala2925Thr Multiple submitters CHARGE syndrome
  • p.Ala2930= Multiple submitters Inborn genetic diseases
  • p.Ala401= Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ala685_Lys686dup Multiple submitters Inborn genetic diseases
  • p.Ala950Thr Multiple submitters CHARGE syndrome
  • p.Ala99Thr Multiple submitters CHARGE syndrome
  • p.Arg1963Gln Multiple submitters Inborn genetic diseases
  • p.Arg2027Gln Multiple submitters Inborn genetic diseases
  • p.Arg2403= Multiple submitters Inborn genetic diseases
  • p.Arg2491His Multiple submitters CHARGE syndrome
  • p.Arg2495Ser Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Arg286Gly Multiple submitters Inborn genetic diseases
  • p.Arg295Trp Multiple submitters CHARGE syndrome
  • p.Arg892His Multiple submitters CHARGE syndrome
  • p.Arg897Gln Multiple submitters Inborn genetic diseases
  • p.Arg920Trp Multiple submitters Inborn genetic diseases
  • p.Arg944His Multiple submitters Inborn genetic diseases
  • p.Asn1042= Multiple submitters CHARGE syndrome
  • p.Asn2118Ser Multiple submitters Inborn genetic diseases
  • p.Asn2808Ser Multiple submitters Inborn genetic diseases
  • p.Asn2826Ser Multiple submitters Inborn genetic diseases
  • p.Asp2197Asn Multiple submitters CHARGE syndrome
  • p.Asp2248= Multiple submitters CHARGE syndrome
  • p.Asp2856= Multiple submitters CHARGE syndrome
  • p.Asp728Asn Multiple submitters CHARGE syndrome
  • p.Gln2426= Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Gln2438Pro Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Gln330Glu Multiple submitters Inborn genetic diseases
  • p.Gln365His Multiple submitters Inborn genetic diseases
  • p.Glu1897Lys Multiple submitters CHARGE syndrome ⚠
  • p.Glu2177Lys Multiple submitters CHARGE syndrome
  • p.Glu930Lys Multiple submitters Inborn genetic diseases
  • p.Glu943= Multiple submitters Inborn genetic diseases
  • p.Gly117Asp Multiple submitters
  • p.Gly1233Ser Multiple submitters Inborn genetic diseases
  • p.Gly176= Multiple submitters Inborn genetic diseases
  • p.Gly219= Multiple submitters Inborn genetic diseases
  • p.Gly2220= Multiple submitters Inborn genetic diseases
  • p.Gly2330= Multiple submitters
  • p.Gly2370Ser Multiple submitters CHARGE syndrome
  • p.Gly2376= Multiple submitters CHARGE syndrome
  • p.Gly2561= Multiple submitters CHARGE syndrome
  • p.Gly2914Arg Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Gly473= Multiple submitters Inborn genetic diseases
  • p.Gly522Val Multiple submitters Inborn genetic diseases
  • p.Gly744Ser Multiple submitters Inborn genetic diseases
  • p.His185Gln Multiple submitters CHARGE syndrome
  • p.His2161Gln Multiple submitters Inborn genetic diseases
  • p.Ile1001Val Multiple submitters CHARGE syndrome
  • p.Ile2323Val Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ile2549Thr Multiple submitters CHARGE syndrome
  • p.Ile491= Multiple submitters CHARGE syndrome
  • p.Leu1292= Multiple submitters Inborn genetic diseases
  • p.Leu2117Phe Multiple submitters CHARGE syndrome
  • p.Leu2806Val Multiple submitters Inborn genetic diseases
  • p.Leu2984Phe Multiple submitters Inborn genetic diseases
  • p.Lys2517= Multiple submitters CHARGE syndrome
  • p.Met2527Leu Multiple submitters Inborn genetic diseases
  • p.Met340Val Multiple submitters Inborn genetic diseases
  • p.Met475Val Multiple submitters Inborn genetic diseases
  • p.Phe2750Leu Multiple submitters CHARGE syndrome ⚠
  • p.Pro1018= Multiple submitters CHARGE syndrome
  • p.Pro174Leu Multiple submitters CHARGE syndrome
  • p.Pro2036= Multiple submitters CHARGE syndrome
  • p.Pro232Thr Multiple submitters Inborn genetic diseases
  • p.Pro239Ser Multiple submitters CHARGE syndrome
  • p.Pro2683Ser Multiple submitters Inborn genetic diseases
  • p.Pro277Leu Multiple submitters Inborn genetic diseases
  • p.Pro2887= Multiple submitters Inborn genetic diseases
  • p.Pro2900= Multiple submitters Inborn genetic diseases
  • p.Pro33Arg Multiple submitters CHARGE syndrome
  • p.Pro393= Multiple submitters CHARGE syndrome
  • p.Pro394Ser Multiple submitters Inborn genetic diseases
  • p.Pro512= Multiple submitters Inborn genetic diseases
  • p.Pro558Ala Multiple submitters Inborn genetic diseases
  • p.Pro653Leu Multiple submitters CHARGE syndrome
  • p.Pro671Leu Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ser103Thr Multiple submitters Inborn genetic diseases
  • p.Ser1074= Multiple submitters Inborn genetic diseases
  • p.Ser137Ala Multiple submitters CHARGE syndrome
  • p.Ser2231Cys Multiple submitters CHARGE syndrome
  • p.Ser2865= Multiple submitters Inborn genetic diseases
  • p.Ser343= Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Ser392Phe Multiple submitters Inborn genetic diseases
  • p.Ser708= Multiple submitters Inborn genetic diseases
  • p.Thr1918= Multiple submitters Inborn genetic diseases
  • p.Thr2452= Multiple submitters Inborn genetic diseases
  • p.Thr59Ser Multiple submitters CHARGE syndrome
  • p.Thr894Ala Multiple submitters Inborn genetic diseases
  • p.Thr942Ala Multiple submitters hypogonadotropic hypogonadism 5 with or without anosmia
  • p.Tyr72= Multiple submitters Inborn genetic diseases
  • p.Val110Ile Multiple submitters Inborn genetic diseases
  • p.Ser2041= No assertion criteria

Likely benign 1110

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

Uncertain significance 1614

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