IRF6 — 393 ClinVar variants

All ClinVar germline IRF6 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 117 flagged for review →

74 Pathogenic · 9 Pathogenic/Likely pathogenic · 56 Likely pathogenic · 8 Conflicting · 63 Benign · 2 Benign/Likely benign · 33 Likely benign · 148 Uncertain significance

Full IRF6 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 117

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 2

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 5

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

Predictors lean, ClinVar uncertain 66

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.

Predictors split 44

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

All IRF6 variants

Pathogenic 74

Pathogenic/Likely pathogenic 9

  • c.1060+1G>A Multiple submitters Inborn genetic diseases
  • p.Arg250Gln Multiple submitters van der Woude syndrome
  • p.Arg45fs Multiple submitters IRF6-related condition
  • p.Arg6Cys Multiple submitters popliteal pterygium syndrome
  • p.Arg84Cys Multiple submitters IRF6-related condition
  • p.Arg9Trp Multiple submitters popliteal pterygium syndrome
  • p.Gln152Ter Multiple submitters IRF6-related condition
  • p.Gln287Ter Multiple submitters van der Woude syndrome 1
  • p.Glu404Lys Multiple submitters popliteal pterygium syndrome ⚠

Likely pathogenic 56

Conflicting classifications of pathogenicity 8

  • p.Arg420His Single submitter orofacial cleft 6, susceptibility to
  • p.Arg45Gln Single submitter popliteal pterygium syndrome ⚠
  • p.Arg9Gln Single submitter orofacial cleft 6, susceptibility to ⚠
  • p.Asp296= Single submitter van der Woude syndrome 1
  • p.Asp354Asn Single submitter orofacial cleft 6, susceptibility to ⚠
  • p.Leu304Pro Single submitter orofacial cleft 6, susceptibility to ⚠
  • p.Ser307= Single submitter van der Woude syndrome
  • p.Val321Met Single submitter orofacial cleft 6, susceptibility to ⚠

Benign 63

Benign/Likely benign 2

  • p.Leu3= Multiple submitters popliteal pterygium syndrome
  • p.Tyr253= Multiple submitters orofacial cleft 6, susceptibility to

Likely benign 33

Uncertain significance 148