FOXE3 — 582 ClinVar variants

All ClinVar germline FOXE3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 326 flagged for review →

19 Pathogenic · 4 Pathogenic/Likely pathogenic · 9 Likely pathogenic · 25 Conflicting · 6 Benign · 13 Benign/Likely benign · 123 Likely benign · 383 Uncertain significance

Full FOXE3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 326

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 9

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 284

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 284

Predictors split 33

The independent predictors disagree with each other — read with care.

All FOXE3 variants

Pathogenic 19

Pathogenic/Likely pathogenic 4

  • p.Ala78Thr Multiple submitters congenital primary aphakia
  • p.Arg61fs Multiple submitters FOXE3-related disorder
  • p.Gly49Ter Multiple submitters congenital primary aphakia
  • p.Ser211Ter Multiple submitters congenital primary aphakia

Likely pathogenic 9

Conflicting classifications of pathogenicity 25

  • p.Ala176fs Single submitter anterior segment dysgenesis
  • p.Ala176Val Single submitter Cardiovascular phenotype ⚠
  • p.Ala254= Single submitter anterior segment dysgenesis
  • p.Ala56Thr Single submitter congenital primary aphakia ⚠
  • p.Arg104Cys Single submitter congenital primary aphakia ⚠
  • p.Arg166= Single submitter Cardiovascular phenotype
  • p.Arg65del Single submitter congenital primary aphakia
  • p.Asp153His Single submitter congenital primary aphakia ⚠
  • p.Asp156Asn Single submitter Cardiovascular phenotype ⚠
  • p.Glu236fs Single submitter anterior segment dysgenesis
  • p.Gly207Arg Single submitter congenital primary aphakia ⚠
  • p.His121= Single submitter Cardiovascular phenotype
  • p.Leu199= Single submitter Cardiovascular phenotype
  • p.Lys168= Single submitter Cardiovascular phenotype
  • p.Met82Val Single submitter congenital primary aphakia ⚠
  • p.Phe13= Single submitter anterior segment dysgenesis
  • p.Phe311fs Single submitter congenital primary aphakia
  • p.Pro182= Single submitter Cardiovascular phenotype
  • p.Pro185= Single submitter Cardiovascular phenotype
  • p.Pro235Ser Single submitter familial thoracic aortic aneurysm and aortic dissection ⚠
  • p.Pro278= Single submitter Cardiovascular phenotype
  • p.Pro73fs Single submitter Cardiovascular phenotype
  • p.Ser258= Single submitter Cardiovascular phenotype
  • p.Ser313= Single submitter Cardiovascular phenotype
  • p.Tyr144Cys Single submitter FOXE3-related disorder ⚠

Benign 6

  • c.*72T>C Multiple submitters
  • c.*77A>G Multiple submitters
  • p.Ala170= Multiple submitters Cardiovascular phenotype
  • p.Ala206= Multiple submitters Cardiovascular phenotype
  • p.Gly49Ala Multiple submitters Cardiovascular phenotype
  • p.Lys141= Multiple submitters congenital primary aphakia

Benign/Likely benign 13

  • c.-14G>A Multiple submitters
  • p.Ala45= Multiple submitters anterior segment dysgenesis
  • p.Ala78= Multiple submitters familial thoracic aortic aneurysm and aortic dissection
  • p.Asp6Asn Multiple submitters Cardiovascular phenotype
  • p.Gly196Ala Multiple submitters anterior segment dysgenesis
  • p.Gly310Asp Multiple submitters Cardiovascular phenotype
  • p.Ile80= Multiple submitters Cardiovascular phenotype
  • p.Leu92= Multiple submitters Cardiovascular phenotype
  • p.Pro17= Multiple submitters anterior segment dysgenesis
  • p.Pro276= Multiple submitters congenital primary aphakia
  • p.Pro53Leu Multiple submitters Cardiovascular phenotype
  • p.Ser300Gly Multiple submitters familial thoracic aortic aneurysm and aortic dissection
  • p.Val201Met Multiple submitters Cardiovascular phenotype

Likely benign 123

  • p.Ala151= Multiple submitters anterior segment dysgenesis
  • p.Ala178= Multiple submitters Cardiovascular phenotype
  • p.Ala179= Multiple submitters anterior segment dysgenesis
  • p.Ala2= Multiple submitters Cardiovascular phenotype
  • p.Ala2= Multiple submitters anterior segment dysgenesis
  • p.Ala247= Multiple submitters congenital primary aphakia
  • p.Ala283= Multiple submitters anterior segment dysgenesis
  • p.Ala294= Multiple submitters Cardiovascular phenotype
  • p.Ala35= Multiple submitters anterior segment dysgenesis
  • p.Ala44= Multiple submitters anterior segment dysgenesis
  • p.Ala46= Multiple submitters anterior segment dysgenesis
  • p.Arg163= Multiple submitters anterior segment dysgenesis
  • p.Arg268= Multiple submitters anterior segment dysgenesis
  • p.Arg39= Multiple submitters congenital primary aphakia
  • p.Arg64= Multiple submitters congenital primary aphakia
  • p.Asn126= Multiple submitters Cardiovascular phenotype
  • p.Glu103= Multiple submitters congenital primary aphakia
  • p.Glu135= Multiple submitters anterior segment dysgenesis
  • p.Gly137= Multiple submitters congenital primary aphakia
  • p.Gly181= Multiple submitters congenital primary aphakia
  • p.Gly277= Multiple submitters anterior segment dysgenesis
  • p.Gly279= Multiple submitters anterior segment dysgenesis
  • p.Gly310= Multiple submitters anterior segment dysgenesis
  • p.Gly38= Multiple submitters congenital primary aphakia
  • p.His86= Multiple submitters anterior segment dysgenesis
  • p.Leu184= Multiple submitters anterior segment dysgenesis
  • p.Leu19= Multiple submitters anterior segment dysgenesis
  • p.Leu222= Multiple submitters congenital primary aphakia
  • p.Leu232= Multiple submitters Cardiovascular phenotype
  • p.Leu271= Multiple submitters anterior segment dysgenesis
  • p.Leu94= Multiple submitters anterior segment dysgenesis
  • p.Phe105= Multiple submitters congenital primary aphakia
  • p.Pro136= Multiple submitters congenital primary aphakia
  • p.Pro190= Multiple submitters anterior segment dysgenesis
  • p.Pro193= Multiple submitters anterior segment dysgenesis
  • p.Pro195= Multiple submitters Cardiovascular phenotype
  • p.Pro212= Multiple submitters anterior segment dysgenesis
  • p.Pro227= Multiple submitters congenital primary aphakia
  • p.Pro235= Multiple submitters congenital primary aphakia
  • p.Pro237= Multiple submitters anterior segment dysgenesis
  • p.Pro243= Multiple submitters Cardiovascular phenotype
  • p.Pro252= Multiple submitters anterior segment dysgenesis
  • p.Pro259= Multiple submitters congenital primary aphakia
  • p.Pro266= Multiple submitters Cardiovascular phenotype
  • p.Pro292= Multiple submitters anterior segment dysgenesis
  • p.Pro309= Multiple submitters anterior segment dysgenesis
  • p.Pro57= Multiple submitters anterior segment dysgenesis
  • p.Ser25= Multiple submitters anterior segment dysgenesis
  • p.Thr146= Multiple submitters Cardiovascular phenotype
  • p.Tyr108= Multiple submitters anterior segment dysgenesis
  • p.Val223= Multiple submitters Cardiovascular phenotype
  • c.-12C>A Single submitter
  • c.*4T>C Single submitter
  • p.Ala152= Single submitter Cardiovascular phenotype
  • p.Ala179Pro Single submitter Cardiovascular phenotype
  • p.Ala192= Single submitter anterior segment dysgenesis
  • p.Ala194= Single submitter
  • p.Ala23= Single submitter Cardiovascular phenotype
  • p.Ala242= Single submitter
  • p.Ala255= Single submitter Cardiovascular phenotype
  • p.Ala273= Single submitter anterior segment dysgenesis
  • p.Ala290= Single submitter Cardiovascular phenotype
  • p.Ala312= Single submitter Cardiovascular phenotype
  • p.Ala35Thr Single submitter Cardiovascular phenotype
  • p.Ala83= Single submitter Cardiovascular phenotype
  • p.Ala95= Single submitter anterior segment dysgenesis
  • p.Ala96= Single submitter Cardiovascular phenotype
  • p.Arg109= Single submitter congenital primary aphakia
  • p.Arg134= Single submitter Cardiovascular phenotype
  • p.Arg162= Single submitter Cardiovascular phenotype
  • p.Arg164= Single submitter anterior segment dysgenesis
  • p.Arg48= Single submitter anterior segment dysgenesis
  • p.Arg61= Single submitter congenital primary aphakia
  • p.Asn122= Single submitter Cardiovascular phenotype
  • p.Asn143= Single submitter Cardiovascular phenotype
  • p.Asn157= Single submitter Cardiovascular phenotype
  • p.Asp220= Single submitter Cardiovascular phenotype
  • p.Asp267= Single submitter anterior segment dysgenesis
  • p.Gln116= Single submitter anterior segment dysgenesis
  • p.Glu50= Single submitter anterior segment dysgenesis
  • p.Gly140= Single submitter anterior segment dysgenesis
  • p.Gly142= Single submitter anterior segment dysgenesis
  • p.Gly196= Single submitter Cardiovascular phenotype
  • p.Gly209= Single submitter Cardiovascular phenotype
  • p.Gly314= Single submitter anterior segment dysgenesis
  • p.Gly58= Single submitter Cardiovascular phenotype
  • p.Gly60= Single submitter congenital primary aphakia
  • p.Leu147= Single submitter Cardiovascular phenotype
  • p.Leu200= Single submitter Cardiovascular phenotype
  • p.Leu287= Single submitter Cardiovascular phenotype
  • p.Leu315= Single submitter congenital primary aphakia
  • p.Leu32= Single submitter anterior segment dysgenesis
  • p.Lys114= Single submitter Cardiovascular phenotype
  • p.Pro133= Single submitter Cardiovascular phenotype
  • p.Pro139= Single submitter Cardiovascular phenotype
  • p.Pro149= Single submitter anterior segment dysgenesis
  • p.Pro173= Single submitter anterior segment dysgenesis
  • p.Pro180= Single submitter Cardiovascular phenotype
  • p.Pro20= Single submitter Cardiovascular phenotype
  • p.Pro208= Single submitter anterior segment dysgenesis
  • p.Pro210= Single submitter Cardiovascular phenotype
  • p.Pro260= Single submitter anterior segment dysgenesis
  • p.Pro28= Single submitter congenital primary aphakia
  • p.Pro285= Single submitter anterior segment dysgenesis
  • p.Pro55= Single submitter anterior segment dysgenesis
  • p.Pro55Leu Single submitter Cardiovascular phenotype ⚠
  • p.Pro57= Single submitter Cardiovascular phenotype
  • p.Pro59= Single submitter anterior segment dysgenesis
  • p.Pro66= Single submitter Cardiovascular phenotype
  • p.Pro9= Single submitter Cardiovascular phenotype
  • p.Ser14= Single submitter Cardiovascular phenotype
  • p.Ser263= Single submitter anterior segment dysgenesis
  • p.Ser263Pro Single submitter
  • p.Ser75= Single submitter Cardiovascular phenotype
  • p.Thr102= Single submitter anterior segment dysgenesis
  • p.Thr124= Single submitter Cardiovascular phenotype
  • p.Tyr98= Single submitter Cardiovascular phenotype
  • p.Val201= Single submitter
  • p.Val201Ala Single submitter Cardiovascular phenotype
  • p.Val22= Single submitter Cardiovascular phenotype
  • c.-10G>A No assertion criteria FOXE3-related disorder
  • p.Ala12= No assertion criteria FOXE3-related disorder
  • p.Pro72= No assertion criteria FOXE3-related disorder

Uncertain significance 383

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