CDK16 — 71 ClinVar variants
All ClinVar germline CDK16 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 43 flagged for review →
1 Likely pathogenic · 8 Benign · 5 Likely benign · 57 Uncertain significance
Full CDK16 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 43
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.
-
CDK16 p.Leu15Phe
Likely pathogenic
Single submitter
oligospermia
Predictors lean, ClinVar uncertain 25
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- CDK16 p.Ala356Val Uncertain significance Single submitter
- CDK16 p.Ala474Thr Uncertain significance Single submitter
- CDK16 p.Ala488Thr Uncertain significance Single submitter
- CDK16 p.Ala51Val Uncertain significance Single submitter
- CDK16 p.Ala66Val Uncertain significance Single submitter
- CDK16 p.Arg107Gly Uncertain significance Single submitter
- CDK16 p.Arg57Ser Uncertain significance Single submitter
- CDK16 p.Asn103Asp Uncertain significance Single submitter
- CDK16 p.Asp338Glu Uncertain significance Single submitter
- CDK16 p.Asp418Asn Uncertain significance Single submitter
- CDK16 p.Asp73Asn Uncertain significance Single submitter
- CDK16 p.Asp73Gly Uncertain significance Single submitter
- CDK16 p.Glu29Lys Uncertain significance Single submitter
- CDK16 p.Gly358Ser Uncertain significance Single submitter
- CDK16 p.Ile166Val Uncertain significance Single submitter
- CDK16 p.Ile21Thr Uncertain significance Single submitter
- CDK16 p.Ile343Phe Uncertain significance Single submitter
- CDK16 p.Ile343Thr Uncertain significance Single submitter
- CDK16 p.Leu154Gln Uncertain significance Single submitter
- CDK16 p.Met481Thr Uncertain significance Single submitter
- CDK16 p.Pro121Ser Uncertain significance Single submitter
- CDK16 p.Pro139Leu Uncertain significance Single submitter
- CDK16 p.Ser484Leu Uncertain significance Single submitter
- CDK16 p.Val70Ala Uncertain significance Single submitter
-
CDK16 p.Ser65Pro
Uncertain significance
No assertion criteria
CDK16-related disorder
Predictors split 17
The independent predictors disagree with each other — read with care.
- CDK16 p.Ala412Thr Uncertain significance Single submitter
- CDK16 p.Arg100Cys Uncertain significance Single submitter
- CDK16 p.Arg102His Uncertain significance Single submitter
-
CDK16 p.Arg16Gln
Uncertain significance
Single submitter
oligospermia
- CDK16 p.Arg279Gln Uncertain significance Single submitter
- CDK16 p.Arg490Cys Uncertain significance Single submitter
- CDK16 p.Arg50His Uncertain significance Single submitter
- CDK16 p.Asn392Ser Uncertain significance Single submitter
- CDK16 p.Asn399Asp Uncertain significance Single submitter
- CDK16 p.Asp188Ala Uncertain significance Single submitter
- CDK16 p.Glu55Lys Uncertain significance Single submitter
- CDK16 p.Gly431Ser Uncertain significance Single submitter
-
CDK16 p.Ile229Val
Uncertain significance
Single submitter
neurodevelopmental disorder
- CDK16 p.Leu465Gln Uncertain significance Single submitter
- CDK16 p.Thr337Met Uncertain significance Single submitter
-
CDK16 p.Asn392Ile
Uncertain significance
No assertion criteria
CDK16-related disorder
-
CDK16 p.His261Tyr
Benign
No assertion criteria
CDK16-related disorder
All CDK16 variants
Likely pathogenic 1
- p.Leu15Phe Single submitter oligospermia ⚠
Benign 8
- c.1376-10C>T Multiple submitters
- c.793-5C>T Multiple submitters
- c.-6-279C>T Multiple submitters
- c.462+7A>T Single submitter
- c.-6-335C>G Single submitter
- c.-6-431A>G No assertion criteria CDK16-related disorder
- p.His261Tyr No assertion criteria CDK16-related disorder ⚠
- p.Ser119= No assertion criteria CDK16-related disorder
Likely benign 5
- c.-6-333T>C Single submitter
- p.Asn392= Single submitter
- p.Gly347= Single submitter
- p.Ser3= Single submitter
- p.Leu118= No assertion criteria CDK16-related disorder
Uncertain significance 57
- c.12+1del Single submitter CDK16-related disorder
- c.1284+3GA[3] Single submitter
- c.-5T>G Single submitter
- c.-6-245C>T Single submitter
- c.-6-264A>G Single submitter
- c.-6-302A>G Single submitter
- c.-6-318G>A Single submitter
- c.-6-386C>G Single submitter
- c.-6-401C>T Single submitter
- c.-6-404G>A Single submitter
- c.-6-416C>T Single submitter CDK16-related Intellectual Disability
- c.-6-441C>G Single submitter
- p.Ala356Val Single submitter ⚠
- p.Ala412Thr Single submitter ⚠
- p.Ala474Thr Single submitter ⚠
- p.Ala488Thr Single submitter ⚠
- p.Ala51Val Single submitter ⚠
- p.Ala66Val Single submitter ⚠
- p.Arg100Cys Single submitter ⚠
- p.Arg102His Single submitter ⚠
- p.Arg107Gly Single submitter ⚠
- p.Arg16Gln Single submitter oligospermia ⚠
- p.Arg279Gln Single submitter ⚠
- p.Arg414Ter Single submitter
- p.Arg432Ter Single submitter
- p.Arg490Cys Single submitter ⚠
- p.Arg50His Single submitter ⚠
- p.Arg57Ser Single submitter ⚠
- p.Asn103Asp Single submitter ⚠
- p.Asn392Ser Single submitter ⚠
- p.Asn399Asp Single submitter ⚠
- p.Asp188Ala Single submitter ⚠
- p.Asp338Glu Single submitter ⚠
- p.Asp418Asn Single submitter ⚠
- p.Asp73Asn Single submitter ⚠
- p.Asp73Gly Single submitter ⚠
- p.Glu29Lys Single submitter ⚠
- p.Glu55Lys Single submitter ⚠
- p.Gly358Ser Single submitter ⚠
- p.Gly431Ser Single submitter ⚠
- p.Ile166Val Single submitter ⚠
- p.Ile21Thr Single submitter ⚠
- p.Ile229Val Single submitter neurodevelopmental disorder ⚠
- p.Ile343Phe Single submitter ⚠
- p.Ile343Thr Single submitter ⚠
- p.Leu154Gln Single submitter ⚠
- p.Leu243= Single submitter
- p.Leu465Gln Single submitter ⚠
- p.Met481Thr Single submitter ⚠
- p.Pro121Ser Single submitter ⚠
- p.Pro139Leu Single submitter ⚠
- p.Ser484Leu Single submitter ⚠
- p.Thr337Met Single submitter ⚠
- p.Val70Ala Single submitter ⚠
- p.Asn392Ile No assertion criteria CDK16-related disorder ⚠
- p.Ser65Pro No assertion criteria CDK16-related disorder ⚠
- p.Trp326Ter No assertion criteria