DKK3 — 50 ClinVar variants
All ClinVar germline DKK3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 44 flagged for review →
2 Likely pathogenic · 2 Benign · 3 Likely benign · 43 Uncertain significance
Full DKK3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 44
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 1
ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.
-
DKK3 p.Arg318Cys
Likely pathogenic
No assertion criteria
autosomal dominant polycystic liver disease
Predictors lean, ClinVar uncertain 37
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- DKK3 p.Ala14Thr Uncertain significance Single submitter
- DKK3 p.Ala14Val Uncertain significance Single submitter
- DKK3 p.Ala245Thr Uncertain significance Single submitter
-
DKK3 p.Ala338Val
Uncertain significance
Single submitter
autosomal dominant polycystic kidney disease
- DKK3 p.Ala342Thr Uncertain significance Single submitter
- DKK3 p.Ala74Glu Uncertain significance Single submitter
- DKK3 p.Arg172Gln Uncertain significance Single submitter
- DKK3 p.Arg180Gln Uncertain significance Single submitter
- DKK3 p.Arg180Trp Uncertain significance Single submitter
- DKK3 p.Arg212Trp Uncertain significance Single submitter
-
DKK3 p.Asn204Ser
Uncertain significance
Single submitter
autosomal dominant polycystic kidney disease
- DKK3 p.Asn96Ser Uncertain significance Single submitter
- DKK3 p.Asp101Asn Uncertain significance Single submitter
- DKK3 p.Asp152Tyr Uncertain significance Single submitter
- DKK3 p.Asp306Gly Uncertain significance Single submitter
-
DKK3 p.Gln169Lys
Uncertain significance
Single submitter
Marfanoid habitus and intellectual disability
- DKK3 p.Glu320Lys Uncertain significance Single submitter
- DKK3 p.Gly137Arg Uncertain significance Single submitter
- DKK3 p.Gly202Ser Uncertain significance Single submitter
- DKK3 p.Gly290Arg Uncertain significance Single submitter
- DKK3 p.Gly347Glu Uncertain significance Single submitter
- DKK3 p.His278Arg Uncertain significance Single submitter
- DKK3 p.His278Asp Uncertain significance Single submitter
- DKK3 p.Ile133Val Uncertain significance Single submitter
- DKK3 p.Ile148Val Uncertain significance Single submitter
- DKK3 p.Met314Val Uncertain significance Single submitter
- DKK3 p.Pro337Ala Uncertain significance Single submitter
- DKK3 p.Ser156Asn Uncertain significance Single submitter
- DKK3 p.Thr100Arg Uncertain significance Single submitter
- DKK3 p.Thr102Met Uncertain significance Single submitter
- DKK3 p.Thr287Ile Uncertain significance Single submitter
- DKK3 p.Thr7Ile Uncertain significance Single submitter
- DKK3 p.Tyr308Cys Uncertain significance Single submitter
- DKK3 p.Val230Ala Uncertain significance Single submitter
- DKK3 p.Val236Gly Uncertain significance Single submitter
- DKK3 p.Val236Met Uncertain significance Single submitter
-
DKK3 p.Pro216Leu
Uncertain significance
No assertion criteria
autosomal dominant polycystic liver disease
Predictors split 6
The independent predictors disagree with each other — read with care.
- DKK3 p.Ala14Glu Uncertain significance Single submitter
- DKK3 p.Arg201Thr Uncertain significance Single submitter
- DKK3 p.Pro233His Uncertain significance Single submitter
- DKK3 p.Pro266Ser Uncertain significance Single submitter
- DKK3 p.Ser93Gly Benign Single submitter
- DKK3 p.Val283Glu Uncertain significance Single submitter
All DKK3 variants
Likely pathogenic 2
- p.Arg318Cys No assertion criteria autosomal dominant polycystic liver disease ⚠
- p.Glu336fs No assertion criteria autosomal dominant polycystic liver disease
Benign 2
- p.Glu307Gly Multiple submitters
- p.Ser93Gly Single submitter ⚠
Likely benign 3
- p.Ala340= Single submitter
- p.Arg292His Single submitter
- p.Lys33Glu Single submitter
Uncertain significance 43
- p.Ala14Glu Single submitter ⚠
- p.Ala14Thr Single submitter ⚠
- p.Ala14Val Single submitter ⚠
- p.Ala245Thr Single submitter ⚠
- p.Ala338Val Single submitter autosomal dominant polycystic kidney disease ⚠
- p.Ala342Thr Single submitter ⚠
- p.Ala74Glu Single submitter ⚠
- p.Arg172Gln Single submitter ⚠
- p.Arg180Gln Single submitter ⚠
- p.Arg180Trp Single submitter ⚠
- p.Arg201Thr Single submitter ⚠
- p.Arg212Trp Single submitter ⚠
- p.Asn204Ser Single submitter autosomal dominant polycystic kidney disease ⚠
- p.Asn96Ser Single submitter ⚠
- p.Asp101Asn Single submitter ⚠
- p.Asp150Asn Single submitter
- p.Asp152Tyr Single submitter ⚠
- p.Asp306Gly Single submitter ⚠
- p.Gln169Lys Single submitter Marfanoid habitus and intellectual disability ⚠
- p.Glu320Lys Single submitter ⚠
- p.Gly137Arg Single submitter ⚠
- p.Gly202Ser Single submitter ⚠
- p.Gly290Arg Single submitter ⚠
- p.Gly347Glu Single submitter ⚠
- p.His278Arg Single submitter ⚠
- p.His278Asp Single submitter ⚠
- p.Ile133Val Single submitter ⚠
- p.Ile148Val Single submitter ⚠
- p.Met314Val Single submitter ⚠
- p.Pro233His Single submitter ⚠
- p.Pro266Ser Single submitter ⚠
- p.Pro337Ala Single submitter ⚠
- p.Ser156Asn Single submitter ⚠
- p.Thr100Arg Single submitter ⚠
- p.Thr102Met Single submitter ⚠
- p.Thr287Ile Single submitter ⚠
- p.Thr7Ile Single submitter ⚠
- p.Tyr308Cys Single submitter ⚠
- p.Val230Ala Single submitter ⚠
- p.Val236Gly Single submitter ⚠
- p.Val236Met Single submitter ⚠
- p.Val283Glu Single submitter ⚠
- p.Pro216Leu No assertion criteria autosomal dominant polycystic liver disease ⚠