KCNH2 — 3392 ClinVar variants

All ClinVar germline KCNH2 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 1459 flagged for review →

374 Pathogenic · 82 Pathogenic/Likely pathogenic · 174 Likely pathogenic · 260 Conflicting · 55 Benign · 70 Benign/Likely benign · 884 Likely benign · 1493 Uncertain significance

Full KCNH2 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 1459

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 153

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification. · showing the 150 best-reviewed of 153

Predicted LoF vs a conflicting call 1

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 964

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 964

Predictors split 335

The independent predictors disagree with each other — read with care. · showing the 150 best-reviewed of 335

All KCNH2 variants

Pathogenic 374

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

Pathogenic/Likely pathogenic 82

Likely pathogenic 174

Conflicting classifications of pathogenicity 260

Benign 55

Benign/Likely benign 70

Likely benign 884

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

  • c.1128+131G>A Multiple submitters
  • c.1128+1777C>T Multiple submitters cardiac rhythm disease
  • c.1128+1802C>G Multiple submitters cardiac rhythm disease
  • c.1128+1811G>A Multiple submitters long QT syndrome
  • c.1128+1852G>A Multiple submitters cardiac rhythm disease
  • c.1128+1868G>C Multiple submitters long QT syndrome
  • c.1128+1870G>A Multiple submitters cardiac rhythm disease
  • c.1128+1883C>T Multiple submitters long QT syndrome
  • c.1128+18G>A Multiple submitters long QT syndrome
  • c.1128+2019G>A Multiple submitters
  • c.1129-6G>T Multiple submitters cardiac rhythm disease
  • c.1129-9C>T Multiple submitters cardiac rhythm disease
  • c.1558-18C>A Multiple submitters long QT syndrome
  • c.1558-20G>A Multiple submitters long QT syndrome
  • c.1558-4C>T Multiple submitters long QT syndrome
  • c.1558-8T>A Multiple submitters cardiac rhythm disease
  • c.1945+13del Multiple submitters long QT syndrome
  • c.1945+20G>A Multiple submitters long QT syndrome
  • c.1946-14G>A Multiple submitters long QT syndrome
  • c.1946-16G>A Multiple submitters long QT syndrome
  • c.1946-7C>T Multiple submitters long QT syndrome
  • c.1946-8G>A Multiple submitters long QT syndrome
  • c.1946-9C>T Multiple submitters cardiac rhythm disease
  • c.2146-10C>A Multiple submitters long QT syndrome
  • c.2146-14C>A Multiple submitters cardiac rhythm disease
  • c.2146-15C>A Multiple submitters long QT syndrome
  • c.2146-8G>A Multiple submitters cardiac rhythm disease
  • c.2398+155C>T Multiple submitters cardiac rhythm disease
  • c.2398+17G>T Multiple submitters cardiac rhythm disease
  • c.2398+59G>A Multiple submitters cardiac rhythm disease
  • c.2399-15C>T Multiple submitters long QT syndrome
  • c.2399-6C>T Multiple submitters cardiac rhythm disease
  • c.2593-7G>A Multiple submitters cardiac rhythm disease
  • c.2692+14G>A Multiple submitters long QT syndrome
  • c.2692+7C>G Multiple submitters long QT syndrome
  • c.2692+8G>A Multiple submitters long QT syndrome
  • c.2693-131G>T Multiple submitters
  • c.2693-48C>T Multiple submitters
  • c.2693-5C>T Multiple submitters long QT syndrome
  • c.2965+18C>T Multiple submitters long QT syndrome
  • c.2965+7C>T Multiple submitters long QT syndrome
  • c.2965+8G>A Multiple submitters long QT syndrome
  • c.2966-20G>A Multiple submitters long QT syndrome
  • c.2966-4G>A Multiple submitters Cardiovascular phenotype
  • c.307+14G>A Multiple submitters long QT syndrome
  • c.308-4G>A Multiple submitters long QT syndrome
  • c.3153-10C>A Multiple submitters long QT syndrome
  • c.3153-13C>T Multiple submitters cardiac rhythm disease
  • c.3153-14A>G Multiple submitters long QT syndrome
  • c.3153-6C>T Multiple submitters cardiac rhythm disease
  • c.3153-9C>T Multiple submitters long QT syndrome
  • c.3331-9G>A Multiple submitters long QT syndrome
  • c.473-7C>T Multiple submitters short QT syndrome type 1
  • c.76+18C>T Multiple submitters long QT syndrome
  • c.76+37T>G Multiple submitters
  • c.77-10G>C Multiple submitters cardiac rhythm disease
  • c.77-12C>G Multiple submitters cardiac rhythm disease
  • c.77-13C>T Multiple submitters long QT syndrome
  • c.77-4C>T Multiple submitters long QT syndrome
  • c.77-9C>T Multiple submitters cardiac rhythm disease
  • c.916+14_916+15delinsTA Multiple submitters long QT syndrome
  • c.917-10C>T Multiple submitters long QT syndrome
  • c.917-13C>T Multiple submitters long QT syndrome
  • c.917-14G>A Multiple submitters cardiac rhythm disease
  • c.917-16C>G Multiple submitters long QT syndrome
  • c.917-16del Multiple submitters long QT syndrome
  • c.917-18C>T Multiple submitters long QT syndrome
  • c.*112C>T Multiple submitters long QT syndrome 2
  • p.Ala1044= Multiple submitters Cardiovascular phenotype
  • p.Ala142= Multiple submitters long QT syndrome
  • p.Ala156= Multiple submitters Cardiovascular phenotype
  • p.Ala175Asp Multiple submitters Cardiovascular phenotype
  • p.Ala188= Multiple submitters Cardiovascular phenotype
  • p.Ala193= Multiple submitters Cardiovascular phenotype
  • p.Ala253= Multiple submitters Cardiovascular phenotype
  • p.Ala290= Multiple submitters Cardiovascular phenotype
  • p.Ala32= Multiple submitters cardiac rhythm disease
  • p.Ala34= Multiple submitters Cardiovascular phenotype
  • p.Ala382= Multiple submitters Cardiovascular phenotype
  • p.Ala408= Multiple submitters Cardiovascular phenotype
  • p.Ala422= Multiple submitters Cardiovascular phenotype
  • p.Ala490= Multiple submitters long QT syndrome
  • p.Ala536= Multiple submitters Cardiovascular phenotype
  • p.Ala547= Multiple submitters cardiac rhythm disease
  • p.Ala558= Multiple submitters cardiac rhythm disease
  • p.Ala755= Multiple submitters cardiac rhythm disease
  • p.Ala772= Multiple submitters long QT syndrome
  • p.Ala83= Multiple submitters long QT syndrome
  • p.Ala85= Multiple submitters long QT syndrome
  • p.Ala89= Multiple submitters cardiac rhythm disease
  • p.Ala9= Multiple submitters cardiac rhythm disease
  • p.Ala907= Multiple submitters cardiac rhythm disease
  • p.Arg1007= Multiple submitters Cardiovascular phenotype
  • p.Arg1032= Multiple submitters Cardiovascular phenotype
  • p.Arg1035= Multiple submitters long QT syndrome
  • p.Arg1055= Multiple submitters cardiac rhythm disease
  • p.Arg1069= Multiple submitters long QT syndrome
  • p.Arg159= Multiple submitters long QT syndrome
  • p.Arg181= Multiple submitters long QT syndrome
  • p.Arg271= Multiple submitters Cardiovascular phenotype
  • p.Arg281= Multiple submitters Cardiovascular phenotype
  • p.Arg397= Multiple submitters Cardiovascular phenotype
  • p.Arg534= Multiple submitters long QT syndrome
  • p.Arg56= Multiple submitters cardiac rhythm disease
  • p.Arg582= Multiple submitters Cardiovascular phenotype
  • p.Arg62= Multiple submitters long QT syndrome
  • p.Arg679= Multiple submitters Cardiovascular phenotype
  • p.Arg685= Multiple submitters Cardiovascular phenotype
  • p.Arg73= Multiple submitters cardiac rhythm disease
  • p.Arg883= Multiple submitters long QT syndrome
  • p.Arg893= Multiple submitters long QT syndrome
  • p.Arg92= Multiple submitters Cardiovascular phenotype
  • p.Arg920= Multiple submitters cardiac rhythm disease
  • p.Arg962= Multiple submitters cardiac rhythm disease
  • p.Asn12= Multiple submitters Cardiovascular phenotype
  • p.Asn339= Multiple submitters cardiac rhythm disease
  • p.Asn369= Multiple submitters long QT syndrome
  • p.Asn477= Multiple submitters long QT syndrome
  • p.Asn598= Multiple submitters long QT syndrome
  • p.Asn633= Multiple submitters long QT syndrome
  • p.Asn658= Multiple submitters long QT syndrome
  • p.Asn714= Multiple submitters cardiac rhythm disease
  • p.Asn819= Multiple submitters long QT syndrome
  • p.Asn866= Multiple submitters long QT syndrome
  • p.Asn985= Multiple submitters cardiac rhythm disease
  • p.Asp144= Multiple submitters Cardiovascular phenotype
  • p.Asp213= Multiple submitters Cardiovascular phenotype
  • p.Asp219= Multiple submitters Cardiovascular phenotype
  • p.Asp259= Multiple submitters Cardiovascular phenotype
  • p.Asp286= Multiple submitters Cardiovascular phenotype
  • p.Asp323= Multiple submitters long QT syndrome
  • p.Asp342= Multiple submitters Cardiovascular phenotype
  • p.Asp411= Multiple submitters long QT syndrome
  • p.Asp501= Multiple submitters long QT syndrome
  • p.Asp793= Multiple submitters Cardiovascular phenotype
  • p.Asp803= Multiple submitters Cardiovascular phenotype
  • p.Asp821= Multiple submitters long QT syndrome
  • p.Asp836= Multiple submitters Cardiovascular phenotype
  • p.Asp850= Multiple submitters long QT syndrome
  • p.Cys1015= Multiple submitters long QT syndrome
  • p.Cys105= Multiple submitters Cardiovascular phenotype
  • p.Cys44= Multiple submitters cardiac rhythm disease
  • p.Cys49= Multiple submitters long QT syndrome
  • p.Cys52= Multiple submitters long QT syndrome
  • p.Cys566= Multiple submitters long QT syndrome
  • p.Cys643= Multiple submitters long QT syndrome
  • p.Cys723= Multiple submitters Cardiovascular phenotype
  • p.Cys750= Multiple submitters long QT syndrome
  • p.Cys977= Multiple submitters Cardiovascular phenotype
  • p.Gln1008= Multiple submitters Cardiovascular phenotype
  • p.Gln11= Multiple submitters long QT syndrome
  • p.Gln1129= Multiple submitters Cardiovascular phenotype
  • p.Gln81= Multiple submitters long QT syndrome
  • p.Gln84= Multiple submitters long QT syndrome
  • p.Glu289= Multiple submitters Cardiovascular phenotype
  • p.Glu437= Multiple submitters cardiac rhythm disease
  • p.Glu575= Multiple submitters long QT syndrome
  • p.Glu699= Multiple submitters cardiac rhythm disease
  • p.Glu722= Multiple submitters long QT syndrome
  • p.Glu971= Multiple submitters Cardiovascular phenotype
  • p.Glu978Lys Multiple submitters cardiac rhythm disease
  • p.Gly1031= Multiple submitters Cardiovascular phenotype
  • p.Gly1036= Multiple submitters cardiac rhythm disease
  • p.Gly1087= Multiple submitters cardiac rhythm disease
  • p.Gly1131= Multiple submitters long QT syndrome
  • p.Gly1158= Multiple submitters long QT syndrome
  • p.Gly149= Multiple submitters Cardiovascular phenotype
  • p.Gly183= Multiple submitters Cardiovascular phenotype
  • p.Gly184= Multiple submitters Cardiovascular phenotype
  • p.Gly24= Multiple submitters cardiac rhythm disease
  • p.Gly262= Multiple submitters long QT syndrome
  • p.Gly306= Multiple submitters long QT syndrome
  • p.Gly381= Multiple submitters Cardiovascular phenotype
  • p.Gly522= Multiple submitters long QT syndrome
  • p.Gly6= Multiple submitters long QT syndrome
  • p.Gly604= Multiple submitters Cardiovascular phenotype
  • p.Gly626= Multiple submitters cardiac rhythm disease
  • p.Gly719= Multiple submitters long QT syndrome
  • p.Gly792= Multiple submitters Cardiovascular phenotype
  • p.Gly816= Multiple submitters long QT syndrome
  • p.Gly820= Multiple submitters long QT syndrome
  • p.Gly916= Multiple submitters Cardiovascular phenotype
  • p.Gly925= Multiple submitters Cardiovascular phenotype
  • p.Gly970= Multiple submitters long QT syndrome
  • p.His1153= Multiple submitters cardiac rhythm disease
  • p.His485= Multiple submitters cardiac rhythm disease
  • p.His492= Multiple submitters long QT syndrome
  • p.His7= Multiple submitters long QT syndrome
  • p.His703= Multiple submitters cardiac rhythm disease
  • p.His731= Multiple submitters long QT syndrome
  • p.Ile1025= Multiple submitters Cardiovascular phenotype
  • p.Ile18= Multiple submitters long QT syndrome
  • p.Ile330= Multiple submitters long QT syndrome
  • p.Ile414= Multiple submitters cardiac rhythm disease
  • p.Ile458= Multiple submitters Cardiovascular phenotype
  • p.Ile461= Multiple submitters long QT syndrome
  • p.Ile469= Multiple submitters Cardiovascular phenotype
  • p.Ile489= Multiple submitters cardiac rhythm disease
  • p.Ile506= Multiple submitters cardiac rhythm disease
  • p.Ile512= Multiple submitters long QT syndrome
  • p.Ile583= Multiple submitters Cardiovascular phenotype
  • p.Ile639= Multiple submitters Cardiovascular phenotype
  • p.Ile82= Multiple submitters cardiac rhythm disease
  • p.Ile868= Multiple submitters cardiac rhythm disease
  • p.Leu1027= Multiple submitters Cardiovascular phenotype
  • p.Leu1049= Multiple submitters Cardiovascular phenotype
  • p.Leu1066= Multiple submitters Cardiovascular phenotype
  • p.Leu109= Multiple submitters long QT syndrome
  • p.Leu173= Multiple submitters long QT syndrome
  • p.Leu225= Multiple submitters Cardiovascular phenotype
  • p.Leu234= Multiple submitters long QT syndrome
  • p.Leu296= Multiple submitters long QT syndrome
  • p.Leu311= Multiple submitters cardiac rhythm disease
  • p.Leu385= Multiple submitters long QT syndrome
  • p.Leu413= Multiple submitters long QT syndrome
  • p.Leu415= Multiple submitters Cardiovascular phenotype
  • p.Leu417= Multiple submitters long QT syndrome
  • p.Leu468= Multiple submitters cardiac rhythm disease
  • p.Leu499= Multiple submitters long QT syndrome
  • p.Leu511= Multiple submitters Cardiovascular phenotype
  • p.Leu523= Multiple submitters long QT syndrome
  • p.Leu530= Multiple submitters Cardiovascular phenotype
  • p.Leu532= Multiple submitters long QT syndrome
  • p.Leu550= Multiple submitters long QT syndrome
  • p.Leu666= Multiple submitters long QT syndrome
  • p.Leu693= Multiple submitters cardiac rhythm disease
  • p.Leu697= Multiple submitters cardiac rhythm disease
  • p.Leu736= Multiple submitters long QT syndrome
  • p.Leu737= Multiple submitters cardiac rhythm disease
  • p.Leu775= Multiple submitters long QT syndrome
  • p.Leu776= Multiple submitters long QT syndrome
  • p.Leu809= Multiple submitters cardiac rhythm disease
  • p.Leu825= Multiple submitters long QT syndrome
  • p.Leu862= Multiple submitters Cardiovascular phenotype
  • p.Leu877= Multiple submitters Cardiovascular phenotype
  • p.Lys608= Multiple submitters Cardiovascular phenotype
  • p.Lys610= Multiple submitters Cardiovascular phenotype
  • p.Lys93Arg Multiple submitters Cardiovascular phenotype
  • p.Phe129= Multiple submitters Cardiovascular phenotype
  • p.Phe14= Multiple submitters Cardiovascular phenotype
  • p.Phe29= Multiple submitters cardiac rhythm disease
  • p.Phe508= Multiple submitters long QT syndrome
  • p.Phe627= Multiple submitters Cardiovascular phenotype
  • p.Phe656= Multiple submitters Cardiovascular phenotype
  • p.Phe683= Multiple submitters long QT syndrome
  • p.Phe891= Multiple submitters cardiac rhythm disease
  • p.Pro1018= Multiple submitters cardiac rhythm disease
  • p.Pro1075= Multiple submitters long QT syndrome
  • p.Pro1084= Multiple submitters cardiac rhythm disease
  • p.Pro1086= Multiple submitters cardiac rhythm disease
  • p.Pro1093= Multiple submitters long QT syndrome
  • p.Pro1096= Multiple submitters cardiac rhythm disease
  • p.Pro1128= Multiple submitters Cardiovascular phenotype
  • p.Pro1157= Multiple submitters Cardiovascular phenotype
  • p.Pro141= Multiple submitters cardiac rhythm disease
  • p.Pro151= Multiple submitters long QT syndrome
  • p.Pro168= Multiple submitters long QT syndrome
  • p.Pro202= Multiple submitters Cardiovascular phenotype
  • p.Pro245= Multiple submitters long QT syndrome
  • p.Pro249= Multiple submitters Cardiovascular phenotype
  • p.Pro386= Multiple submitters long QT syndrome
  • p.Pro393= Multiple submitters cardiac rhythm disease
  • p.Pro486= Multiple submitters long QT syndrome
  • p.Pro596= Multiple submitters long QT syndrome
  • p.Pro72= Multiple submitters long QT syndrome
  • p.Pro764= Multiple submitters long QT syndrome
  • p.Pro815= Multiple submitters Cardiovascular phenotype
  • p.Pro872= Multiple submitters cardiac rhythm disease
  • p.Pro917= Multiple submitters long QT syndrome
  • p.Pro923= Multiple submitters Cardiovascular phenotype
  • p.Pro964= Multiple submitters Cardiovascular phenotype
  • p.Pro967= Multiple submitters cardiac rhythm disease
  • p.Pro972= Multiple submitters long QT syndrome
  • p.Pro986= Multiple submitters long QT syndrome
  • p.Ser1040= Multiple submitters long QT syndrome
  • p.Ser1092= Multiple submitters Cardiovascular phenotype
  • p.Ser1155= Multiple submitters Cardiovascular phenotype
  • p.Ser153= Multiple submitters cardiac rhythm disease
  • p.Ser243= Multiple submitters Cardiovascular phenotype
  • p.Ser266= Multiple submitters long QT syndrome
  • p.Ser272= Multiple submitters long QT syndrome
  • p.Ser278= Multiple submitters long QT syndrome
  • p.Ser283= Multiple submitters Cardiovascular phenotype
  • p.Ser322= Multiple submitters long QT syndrome
  • p.Ser351= Multiple submitters cardiac rhythm disease
  • p.Ser517= Multiple submitters Cardiovascular phenotype
  • p.Ser543= Multiple submitters Cardiovascular phenotype
  • p.Ser624= Multiple submitters Cardiovascular phenotype
  • p.Ser636= Multiple submitters cardiac rhythm disease
  • p.Ser660= Multiple submitters cardiac rhythm disease
  • p.Ser854= Multiple submitters long QT syndrome
  • p.Ser871= Multiple submitters cardiac rhythm disease
  • p.Ser890= Multiple submitters Cardiovascular phenotype
  • p.Ser906= Multiple submitters long QT syndrome
  • p.Ser919= Multiple submitters Cardiovascular phenotype
  • p.Ser936= Multiple submitters cardiac rhythm disease
  • p.Ser941= Multiple submitters long QT syndrome
  • p.Ser950= Multiple submitters long QT syndrome
  • p.Ser981= Multiple submitters long QT syndrome
  • p.Thr1054= Multiple submitters Cardiovascular phenotype

Uncertain significance 1493

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