KCNN3 — 170 ClinVar variants
All ClinVar germline KCNN3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 89 flagged for review →
3 Pathogenic · 1 Pathogenic/Likely pathogenic · 3 Likely pathogenic · 4 Conflicting · 10 Benign · 12 Benign/Likely benign · 36 Likely benign · 101 Uncertain significance
Full KCNN3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 89
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 2
ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.
-
KCNN3 p.Ile714Thr
Conflicting
Single submitter
Inborn genetic diseases
-
KCNN3 p.Pro112Ala
Conflicting
Single submitter
Inborn genetic diseases
Predictors lean, ClinVar uncertain 69
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
-
KCNN3 p.Arg224Gln
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
KCNN3 p.Glu204Gly
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
KCNN3 p.Val716Phe
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
KCNN3 p.Ala201Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Ala201Thr Uncertain significance Single submitter
-
KCNN3 p.Ala439Asp
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Ala551Val Uncertain significance Single submitter
- KCNN3 p.Ala573Pro Uncertain significance Single submitter
-
KCNN3 p.Ala691Thr
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Arg154Trp Uncertain significance Single submitter
-
KCNN3 p.Arg164Gln
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Arg282Gln
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Arg420Gln
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
-
KCNN3 p.Arg448Cys
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Arg448His
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
- KCNN3 p.Arg577Trp Uncertain significance Single submitter
-
KCNN3 p.Arg648Trp
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
-
KCNN3 p.Asn259Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Asn446Ser Uncertain significance Single submitter
-
KCNN3 p.Cys23Tyr
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Cys321Tyr Uncertain significance Single submitter
- KCNN3 p.Cys524Ser Uncertain significance Single submitter
- KCNN3 p.Gln157Pro Uncertain significance Single submitter
-
KCNN3 p.Gln231Leu
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Gln41Leu Uncertain significance Single submitter
-
KCNN3 p.Gln90His
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Glu202Lys Uncertain significance Single submitter
- KCNN3 p.Glu225Asp Uncertain significance Single submitter
-
KCNN3 p.Glu694Lys
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
- KCNN3 p.Gly438Ala Uncertain significance Single submitter
- KCNN3 p.Gly703Cys Uncertain significance Single submitter
-
KCNN3 p.His163Gln
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.His228Tyr
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
-
KCNN3 p.His235Tyr
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.His556Pro Uncertain significance Single submitter
-
KCNN3 p.Ile375Ser
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
-
KCNN3 p.Leu137Phe
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Leu15Phe
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Leu198Val Uncertain significance Single submitter
-
KCNN3 p.Leu234Phe
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Leu288Gln Uncertain significance Single submitter
- KCNN3 p.Leu495Pro Uncertain significance Single submitter
-
KCNN3 p.Leu506Val
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Leu546Pro Uncertain significance Single submitter
- KCNN3 p.Leu576Pro Uncertain significance Single submitter
-
KCNN3 p.Lys596Glu
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
-
KCNN3 p.Met451Val
Uncertain significance
Single submitter
KCNN3-related disorder
-
KCNN3 p.Phe604Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Pro112Arg Uncertain significance Single submitter
-
KCNN3 p.Pro112Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Pro213Leu
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Pro256Ser Uncertain significance Single submitter
-
KCNN3 p.Pro459Arg
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Pro84Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Ser10Leu
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Ser113Leu
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Ser147Gly Uncertain significance Single submitter
- KCNN3 p.Ser222Phe Uncertain significance Single submitter
- KCNN3 p.Ser316Pro Uncertain significance Single submitter
- KCNN3 p.Ser367Thr Uncertain significance Single submitter
-
KCNN3 p.Thr248Asn
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Thr359Ser Uncertain significance Single submitter
-
KCNN3 p.Thr680Asn
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Val12Leu
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Val297Phe Uncertain significance Single submitter
-
KCNN3 p.Val342Ile
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Val541Ala Uncertain significance Single submitter
-
KCNN3 p.Val542Leu
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Val629Met Uncertain significance Single submitter
Predictors split 18
The independent predictors disagree with each other — read with care.
-
KCNN3 p.Val478Ile
Likely benign
Multiple submitters
Inborn genetic diseases
-
KCNN3 p.Ala318Val
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Ala595Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Arg398Trp
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
- KCNN3 p.Arg479His Uncertain significance Single submitter
-
KCNN3 p.Arg567Gln
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Asn168Lys
Uncertain significance
Single submitter
Zimmermann-Laband syndrome 3
- KCNN3 p.Asn197Lys Uncertain significance Single submitter
- KCNN3 p.Ile457Met Uncertain significance Single submitter
-
KCNN3 p.Leu304Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Met314Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Met513Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Met638Ile
Uncertain significance
Single submitter
Inborn genetic diseases
- KCNN3 p.Phe315Leu Likely benign Single submitter
- KCNN3 p.Ser397Ala Uncertain significance Single submitter
-
KCNN3 p.Ser658Arg
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Thr387Met
Uncertain significance
Single submitter
Inborn genetic diseases
-
KCNN3 p.Pro217Leu
Uncertain significance
No assertion criteria
Zimmermann-Laband syndrome 3
All KCNN3 variants
Pathogenic 3
- p.Gly350Asp No assertion criteria Zimmermann-Laband syndrome 3
- p.Lys269Glu No assertion criteria Zimmermann-Laband syndrome 3
- p.Ser436Cys No assertion criteria Zimmermann-Laband syndrome 3
Pathogenic/Likely pathogenic 1
- p.Ala536Thr Multiple submitters Zimmermann-Laband syndrome 3
Likely pathogenic 3
- p.Gln80_Pro81insGlnGlnGlnGlnGlnGlnGlnGlnGlnGlnGln Single submitter
- p.Val450Ala Single submitter Inborn genetic diseases
- p.Val539del Single submitter Zimmermann-Laband syndrome 3
Conflicting classifications of pathogenicity 4
- p.Gln78_Gln80dup Single submitter
- p.Gln79_Gln80del Single submitter Zimmermann-Laband syndrome 3
- p.Ile714Thr Single submitter Inborn genetic diseases ⚠
- p.Pro112Ala Single submitter Inborn genetic diseases ⚠
Benign 10
- p.Asn349= Multiple submitters Zimmermann-Laband syndrome 3
- p.Leu364= Multiple submitters Zimmermann-Laband syndrome 3
- c.1449-3920T>G Single submitter
- p.Gln39_Gln41del Single submitter
- p.Gln71_Gln80dup Single submitter
- p.Gln74_Gln80del Single submitter
- p.Gln75_Gln80del Single submitter
- p.Gln76_Gln80del Single submitter
- p.Gln80_Pro81insGlnGlnGlnGlnPro Single submitter
- p.Gln80_Pro81insGlnHisGlnGln Single submitter
Benign/Likely benign 12
- p.Gln72_Gln80del Multiple submitters
- p.Gln72_Gln80dup Multiple submitters Inborn genetic diseases
- p.Gln73_Gln80dup Multiple submitters
- p.Gln74_Gln80dup Multiple submitters
- p.Gln75_Gln80dup Multiple submitters Zimmermann-Laband syndrome 3
- p.Gln76_Gln80dup Multiple submitters Zimmermann-Laband syndrome 3
- p.Gln77_Gln80del Multiple submitters
- p.Gln77_Gln80dup Multiple submitters
- p.Gln78_Gln80del Multiple submitters
- p.Gln79_Gln80dup Multiple submitters esophageal atresia
- p.Gln80del Multiple submitters
- p.Gln80dup Multiple submitters
Likely benign 36
- c.1702-3T>C Multiple submitters
- p.Ala229= Multiple submitters
- p.Glu381Gln Multiple submitters
- p.Leu66= Multiple submitters
- p.Leu66His Multiple submitters
- p.Val478Ile Multiple submitters Inborn genetic diseases ⚠
- c.1590+11G>A Single submitter
- c.1590+13C>G Single submitter
- p.Ala110Pro Single submitter Inborn genetic diseases
- p.Ala250Thr Single submitter Inborn genetic diseases
- p.Ala391= Single submitter
- p.Ala668Thr Single submitter Inborn genetic diseases
- p.Asn227= Single submitter
- p.Asn671Thr Single submitter Inborn genetic diseases
- p.Cys373= Single submitter
- p.Gln41_Pro42insGln Single submitter
- p.Gln41_Pro42insGlnGln Single submitter Inborn genetic diseases
- p.Glu29Gln Single submitter Inborn genetic diseases
- p.Gly438= Single submitter
- p.Gly697Arg Single submitter Inborn genetic diseases
- p.His155Gln Single submitter Inborn genetic diseases
- p.Ile677= Single submitter Inborn genetic diseases
- p.Lys620= Single submitter
- p.Phe315Leu Single submitter ⚠
- p.Phe466= Single submitter
- p.Pro112Thr Single submitter
- p.Pro47Gln Single submitter Inborn genetic diseases
- p.Pro47Ser Single submitter
- p.Pro515= Single submitter
- p.Pro63His Single submitter
- p.Pro64Gln Single submitter
- p.Pro724= Single submitter
- p.Ser284= Single submitter
- p.Ser58Leu Single submitter Inborn genetic diseases
- p.Ser699= Single submitter
- p.Thr387= Single submitter
Uncertain significance 101
- p.Arg224Gln Multiple submitters Inborn genetic diseases ⚠
- p.Glu204Gly Multiple submitters Inborn genetic diseases ⚠
- p.Val716Phe Multiple submitters Inborn genetic diseases ⚠
- c.1030-3C>A Single submitter
- c.1448+2T>C Single submitter
- c.1449-3921del Single submitter Zimmermann-Laband syndrome 3
- c.1701+3059C>T Single submitter Zimmermann-Laband syndrome 3
- c.933+1G>A Single submitter
- p.Ala201Ser Single submitter Inborn genetic diseases ⚠
- p.Ala201Thr Single submitter ⚠
- p.Ala318Val Single submitter Inborn genetic diseases ⚠
- p.Ala439Asp Single submitter Inborn genetic diseases ⚠
- p.Ala551Val Single submitter ⚠
- p.Ala573Pro Single submitter ⚠
- p.Ala595Thr Single submitter Inborn genetic diseases ⚠
- p.Ala691Thr Single submitter Inborn genetic diseases ⚠
- p.Arg154Trp Single submitter ⚠
- p.Arg164Gln Single submitter Inborn genetic diseases ⚠
- p.Arg224Trp Single submitter
- p.Arg282Gln Single submitter Inborn genetic diseases ⚠
- p.Arg398Trp Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Arg420Gln Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Arg448Cys Single submitter Inborn genetic diseases ⚠
- p.Arg448His Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Arg479His Single submitter ⚠
- p.Arg567Gln Single submitter Inborn genetic diseases ⚠
- p.Arg577Trp Single submitter ⚠
- p.Arg648Trp Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Asn168Lys Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Asn197Lys Single submitter ⚠
- p.Asn259Ser Single submitter Inborn genetic diseases ⚠
- p.Asn446Ser Single submitter ⚠
- p.Cys23Tyr Single submitter Inborn genetic diseases ⚠
- p.Cys321Tyr Single submitter ⚠
- p.Cys524Ser Single submitter ⚠
- p.Gln157Pro Single submitter ⚠
- p.Gln231Leu Single submitter Inborn genetic diseases ⚠
- p.Gln41Leu Single submitter ⚠
- p.Gln687Ter Single submitter Zimmermann-Laband syndrome 3
- p.Gln90His Single submitter Inborn genetic diseases ⚠
- p.Glu202Lys Single submitter ⚠
- p.Glu225Asp Single submitter ⚠
- p.Glu694Lys Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Gly438Ala Single submitter ⚠
- p.Gly703Cys Single submitter ⚠
- p.His163Gln Single submitter Inborn genetic diseases ⚠
- p.His228Tyr Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.His235Tyr Single submitter Inborn genetic diseases ⚠
- p.His556Pro Single submitter ⚠
- p.Ile375Ser Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Ile457Met Single submitter ⚠
- p.Leu137Phe Single submitter Inborn genetic diseases ⚠
- p.Leu15Phe Single submitter Inborn genetic diseases ⚠
- p.Leu198Val Single submitter ⚠
- p.Leu234Phe Single submitter Inborn genetic diseases ⚠
- p.Leu288Gln Single submitter ⚠
- p.Leu304Ile Single submitter Inborn genetic diseases ⚠
- p.Leu344Arg Single submitter
- p.Leu495Pro Single submitter ⚠
- p.Leu506Val Single submitter Inborn genetic diseases ⚠
- p.Leu546Pro Single submitter ⚠
- p.Leu576Pro Single submitter ⚠
- p.Lys596Glu Single submitter Zimmermann-Laband syndrome 3 ⚠
- p.Met314Thr Single submitter Inborn genetic diseases ⚠
- p.Met451Val Single submitter KCNN3-related disorder ⚠
- p.Met513Ile Single submitter Inborn genetic diseases ⚠
- p.Met638Ile Single submitter Inborn genetic diseases ⚠
- p.Phe604Ser Single submitter Inborn genetic diseases ⚠
- p.Pro112Arg Single submitter ⚠
- p.Pro112Ser Single submitter Inborn genetic diseases ⚠
- p.Pro169Ala Single submitter Inborn genetic diseases
- p.Pro213Leu Single submitter Inborn genetic diseases ⚠
- p.Pro256Ser Single submitter ⚠
- p.Pro459Arg Single submitter Inborn genetic diseases ⚠
- p.Pro724Leu Single submitter Inborn genetic diseases
- p.Pro84Ser Single submitter Inborn genetic diseases ⚠
- p.Ser10Leu Single submitter Inborn genetic diseases ⚠
- p.Ser113fs Single submitter
- p.Ser113Leu Single submitter Inborn genetic diseases ⚠
- p.Ser147Gly Single submitter ⚠
- p.Ser222Phe Single submitter ⚠
- p.Ser316Pro Single submitter ⚠
- p.Ser367Thr Single submitter ⚠
- p.Ser393del Single submitter
- p.Ser397Ala Single submitter ⚠
- p.Ser658Arg Single submitter Inborn genetic diseases ⚠
- p.Ser730Asn Single submitter
- p.Thr248Asn Single submitter Inborn genetic diseases ⚠
- p.Thr359Ser Single submitter ⚠
- p.Thr387Met Single submitter Inborn genetic diseases ⚠
- p.Thr680Asn Single submitter Inborn genetic diseases ⚠
- p.Trp580Ter Single submitter
- p.Tyr382Ter Single submitter
- p.Val12Leu Single submitter Inborn genetic diseases ⚠
- p.Val297Phe Single submitter ⚠
- p.Val342Ile Single submitter Inborn genetic diseases ⚠
- p.Val541Ala Single submitter ⚠
- p.Val542Leu Single submitter Inborn genetic diseases ⚠
- p.Val629Met Single submitter ⚠
- c.1448+1G>T No assertion criteria prostate cancer
- p.Pro217Leu No assertion criteria Zimmermann-Laband syndrome 3 ⚠