AGAP3 — 125 ClinVar variants
All ClinVar germline AGAP3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 112 flagged for review →
3 Benign · 8 Likely benign · 114 Uncertain significance
Full AGAP3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 112
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 lean, ClinVar uncertain 44
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- AGAP3 p.Ala314Thr Uncertain significance Single submitter
- AGAP3 p.Ala324Val Uncertain significance Single submitter
- AGAP3 p.Ala331Thr Uncertain significance Single submitter
- AGAP3 p.Ala389Thr Uncertain significance Single submitter
- AGAP3 p.Ala62Val Uncertain significance Single submitter
- AGAP3 p.Ala709Thr Uncertain significance Single submitter
- AGAP3 p.Ala736Thr Uncertain significance Single submitter
- AGAP3 p.Arg123His Uncertain significance Single submitter
- AGAP3 p.Arg371His Uncertain significance Single submitter
- AGAP3 p.Arg413Gln Uncertain significance Single submitter
- AGAP3 p.Arg531His Uncertain significance Single submitter
- AGAP3 p.Arg648His Uncertain significance Single submitter
- AGAP3 p.Arg70Gly Uncertain significance Single submitter
- AGAP3 p.Arg906Pro Uncertain significance Single submitter
- AGAP3 p.Cys700Tyr Uncertain significance Single submitter
- AGAP3 p.Cys884Tyr Uncertain significance Single submitter
- AGAP3 p.Gln172His Uncertain significance Single submitter
- AGAP3 p.Glu391Asp Uncertain significance Single submitter
- AGAP3 p.Gly161Glu Uncertain significance Single submitter
- AGAP3 p.Gly450Ser Uncertain significance Single submitter
- AGAP3 p.Gly497Ser Uncertain significance Single submitter
- AGAP3 p.Gly822Arg Uncertain significance Single submitter
- AGAP3 p.Gly855Asp Uncertain significance Single submitter
- AGAP3 p.His502Asn Uncertain significance Single submitter
- AGAP3 p.Ile316Val Uncertain significance Single submitter
- AGAP3 p.Ile69Val Uncertain significance Single submitter
- AGAP3 p.Leu515Pro Uncertain significance Single submitter
- AGAP3 p.Leu904Arg Uncertain significance Single submitter
- AGAP3 p.Lys369Arg Uncertain significance Single submitter
- AGAP3 p.Met552Val Uncertain significance Single submitter
- AGAP3 p.Pro523Leu Uncertain significance Single submitter
- AGAP3 p.Pro550Ser Uncertain significance Single submitter
- AGAP3 p.Pro57Leu Uncertain significance Single submitter
- AGAP3 p.Pro58Ser Uncertain significance Single submitter
- AGAP3 p.Pro900Leu Uncertain significance Single submitter
- AGAP3 p.Pro908Arg Uncertain significance Single submitter
- AGAP3 p.Ser312Cys Uncertain significance Single submitter
- AGAP3 p.Ser414Arg Uncertain significance Single submitter
- AGAP3 p.Thr590Asn Uncertain significance Single submitter
- AGAP3 p.Thr824Met Uncertain significance Single submitter
- AGAP3 p.Trp541Cys Uncertain significance Single submitter
- AGAP3 p.Val610Leu Uncertain significance Single submitter
- AGAP3 p.Val668Ile Uncertain significance Single submitter
- AGAP3 p.Val671Ile Uncertain significance Single submitter
Predictors split 68
The independent predictors disagree with each other — read with care.
- AGAP3 p.Ala470Thr Uncertain significance Single submitter
- AGAP3 p.Ala67Val Uncertain significance Single submitter
- AGAP3 p.Ala728Asp Uncertain significance Single submitter
- AGAP3 p.Ala738Thr Uncertain significance Single submitter
- AGAP3 p.Ala860Val Uncertain significance Single submitter
- AGAP3 p.Arg351His Uncertain significance Single submitter
- AGAP3 p.Arg385Gln Uncertain significance Single submitter
- AGAP3 p.Arg457Gln Uncertain significance Single submitter
- AGAP3 p.Arg481Cys Uncertain significance Single submitter
- AGAP3 p.Arg489Gln Uncertain significance Single submitter
- AGAP3 p.Arg489Trp Uncertain significance Single submitter
- AGAP3 p.Arg524His Uncertain significance Single submitter
- AGAP3 p.Arg672His Uncertain significance Single submitter
- AGAP3 p.Arg763Cys Uncertain significance Single submitter
- AGAP3 p.Arg766Gln Uncertain significance Single submitter
- AGAP3 p.Arg791Gln Uncertain significance Single submitter
- AGAP3 p.Arg799Gly Uncertain significance Single submitter
- AGAP3 p.Arg854Gln Uncertain significance Single submitter
- AGAP3 p.Arg854Leu Uncertain significance Single submitter
- AGAP3 p.Arg854Trp Uncertain significance Single submitter
- AGAP3 p.Arg863His Uncertain significance Single submitter
- AGAP3 p.Arg864Trp Uncertain significance Single submitter
- AGAP3 p.Arg906Cys Uncertain significance Single submitter
- AGAP3 p.Asp334Asn Uncertain significance Single submitter
- AGAP3 p.Asp384Val Uncertain significance Single submitter
- AGAP3 p.Asp681Asn Uncertain significance Single submitter
- AGAP3 p.Asp819Asn Uncertain significance Single submitter
- AGAP3 p.Gln876His Uncertain significance Single submitter
- AGAP3 p.Glu353Gln Uncertain significance Single submitter
- AGAP3 p.Glu608Gly Uncertain significance Single submitter
- AGAP3 p.Glu94Gly Uncertain significance Single submitter
- AGAP3 p.Gly329Ser Likely benign Single submitter
- AGAP3 p.Gly380Val Uncertain significance Single submitter
- AGAP3 p.Gly589Trp Uncertain significance Single submitter
- AGAP3 p.Gly808Ser Uncertain significance Single submitter
- AGAP3 p.Gly820Arg Uncertain significance Single submitter
- AGAP3 p.Gly866Ser Uncertain significance Single submitter
- AGAP3 p.Gly897Asp Uncertain significance Single submitter
- AGAP3 p.His877Tyr Uncertain significance Single submitter
- AGAP3 p.Ile374Val Uncertain significance Single submitter
- AGAP3 p.Ile397Thr Uncertain significance Single submitter
- AGAP3 p.Leu569Arg Uncertain significance Single submitter
- AGAP3 p.Pro298Ser Uncertain significance Single submitter
- AGAP3 p.Pro340Ser Uncertain significance Single submitter
- AGAP3 p.Pro476Leu Uncertain significance Single submitter
- AGAP3 p.Pro567Thr Uncertain significance Single submitter
- AGAP3 p.Pro571Leu Uncertain significance Single submitter
- AGAP3 p.Pro58Leu Uncertain significance Single submitter
- AGAP3 p.Pro723Leu Uncertain significance Single submitter
- AGAP3 p.Pro890Leu Benign Single submitter
- AGAP3 p.Ser344Asn Uncertain significance Single submitter
- AGAP3 p.Ser396Ile Uncertain significance Single submitter
- AGAP3 p.Ser503Leu Uncertain significance Single submitter
- AGAP3 p.Ser536Pro Uncertain significance Single submitter
- AGAP3 p.Ser606Leu Uncertain significance Single submitter
- AGAP3 p.Ser635Cys Uncertain significance Single submitter
- AGAP3 p.Ser809Phe Uncertain significance Single submitter
- AGAP3 p.Thr325Met Uncertain significance Single submitter
- AGAP3 p.Thr471Ile Uncertain significance Single submitter
- AGAP3 p.Thr492Ile Uncertain significance Single submitter
- AGAP3 p.Thr588Ala Uncertain significance Single submitter
- AGAP3 p.Thr625Ala Uncertain significance Single submitter
- AGAP3 p.Val311Met Uncertain significance Single submitter
- AGAP3 p.Val535Ile Uncertain significance Single submitter
- AGAP3 p.Val665Met Uncertain significance Single submitter
- AGAP3 p.Val729Ile Uncertain significance Single submitter
- AGAP3 p.Val741Ile Uncertain significance Single submitter
- AGAP3 p.Val835Ile Uncertain significance Single submitter
All AGAP3 variants
Benign 3
- p.Arg252= Multiple submitters
- p.Pro890Leu Single submitter ⚠
- p.Val31fs Single submitter
Likely benign 8
- c.970-4T>G Single submitter
- p.Ala26= Single submitter
- p.Ala507Thr Single submitter
- p.Cys32Gly Single submitter
- p.Cys680= Single submitter
- p.Gly329Ser Single submitter ⚠
- p.Met552Thr Single submitter
- p.Val31Gly Single submitter
Uncertain significance 114
- p.Ala27fs Single submitter
- p.Ala314Thr Single submitter ⚠
- p.Ala324Val Single submitter ⚠
- p.Ala331Thr Single submitter ⚠
- p.Ala389Thr Single submitter ⚠
- p.Ala470Thr Single submitter ⚠
- p.Ala62Val Single submitter ⚠
- p.Ala67Val Single submitter ⚠
- p.Ala709Thr Single submitter ⚠
- p.Ala728Asp Single submitter ⚠
- p.Ala736Thr Single submitter ⚠
- p.Ala738Thr Single submitter ⚠
- p.Ala860Val Single submitter ⚠
- p.Arg123His Single submitter ⚠
- p.Arg351His Single submitter ⚠
- p.Arg371His Single submitter ⚠
- p.Arg385Gln Single submitter ⚠
- p.Arg413Gln Single submitter ⚠
- p.Arg457Gln Single submitter ⚠
- p.Arg481Cys Single submitter ⚠
- p.Arg489Gln Single submitter ⚠
- p.Arg489Trp Single submitter ⚠
- p.Arg524His Single submitter ⚠
- p.Arg531His Single submitter ⚠
- p.Arg648His Single submitter ⚠
- p.Arg672His Single submitter ⚠
- p.Arg70Gly Single submitter ⚠
- p.Arg763Cys Single submitter ⚠
- p.Arg766Gln Single submitter ⚠
- p.Arg791Gln Single submitter ⚠
- p.Arg799Gly Single submitter ⚠
- p.Arg854Gln Single submitter ⚠
- p.Arg854Leu Single submitter ⚠
- p.Arg854Trp Single submitter ⚠
- p.Arg863His Single submitter ⚠
- p.Arg864Trp Single submitter ⚠
- p.Arg906Cys Single submitter ⚠
- p.Arg906Pro Single submitter ⚠
- p.Asp334Asn Single submitter ⚠
- p.Asp384Val Single submitter ⚠
- p.Asp681Asn Single submitter ⚠
- p.Asp819Asn Single submitter ⚠
- p.Cys700Tyr Single submitter ⚠
- p.Cys884Tyr Single submitter ⚠
- p.Gln172His Single submitter ⚠
- p.Gln29Arg Single submitter
- p.Gln29Glu Single submitter
- p.Gln876His Single submitter ⚠
- p.Glu353Gln Single submitter ⚠
- p.Glu391Asp Single submitter ⚠
- p.Glu608Gly Single submitter ⚠
- p.Glu94Gly Single submitter ⚠
- p.Gly161Glu Single submitter ⚠
- p.Gly380Val Single submitter ⚠
- p.Gly450Ser Single submitter ⚠
- p.Gly497Ser Single submitter ⚠
- p.Gly589Trp Single submitter ⚠
- p.Gly808Ser Single submitter ⚠
- p.Gly820Arg Single submitter ⚠
- p.Gly822Arg Single submitter ⚠
- p.Gly855Asp Single submitter ⚠
- p.Gly866Ser Single submitter ⚠
- p.Gly897Asp Single submitter ⚠
- p.His502Asn Single submitter ⚠
- p.His877Tyr Single submitter ⚠
- p.Ile316Val Single submitter ⚠
- p.Ile374Val Single submitter ⚠
- p.Ile397Thr Single submitter ⚠
- p.Ile69Val Single submitter ⚠
- p.Leu515Pro Single submitter ⚠
- p.Leu569Arg Single submitter ⚠
- p.Leu904Arg Single submitter ⚠
- p.Lys369Arg Single submitter ⚠
- p.Met552Val Single submitter ⚠
- p.Pro298Ser Single submitter ⚠
- p.Pro340Ser Single submitter ⚠
- p.Pro476Leu Single submitter ⚠
- p.Pro523Leu Single submitter ⚠
- p.Pro550Ser Single submitter ⚠
- p.Pro567Thr Single submitter ⚠
- p.Pro571Leu Single submitter ⚠
- p.Pro57Leu Single submitter ⚠
- p.Pro58Leu Single submitter ⚠
- p.Pro58Ser Single submitter ⚠
- p.Pro723Leu Single submitter ⚠
- p.Pro900Leu Single submitter ⚠
- p.Pro908Arg Single submitter ⚠
- p.Ser312Cys Single submitter ⚠
- p.Ser344Asn Single submitter ⚠
- p.Ser396Ile Single submitter ⚠
- p.Ser414Arg Single submitter ⚠
- p.Ser503Leu Single submitter ⚠
- p.Ser50Leu Single submitter
- p.Ser536Pro Single submitter ⚠
- p.Ser606Leu Single submitter ⚠
- p.Ser635Cys Single submitter ⚠
- p.Ser809Phe Single submitter ⚠
- p.Thr325Met Single submitter ⚠
- p.Thr471Ile Single submitter ⚠
- p.Thr492Ile Single submitter ⚠
- p.Thr588Ala Single submitter ⚠
- p.Thr590Asn Single submitter ⚠
- p.Thr625Ala Single submitter ⚠
- p.Thr824Met Single submitter ⚠
- p.Trp541Cys Single submitter ⚠
- p.Val311Met Single submitter ⚠
- p.Val535Ile Single submitter ⚠
- p.Val610Leu Single submitter ⚠
- p.Val665Met Single submitter ⚠
- p.Val668Ile Single submitter ⚠
- p.Val671Ile Single submitter ⚠
- p.Val729Ile Single submitter ⚠
- p.Val741Ile Single submitter ⚠
- p.Val835Ile Single submitter ⚠