PHF6 — 278 ClinVar variants

All ClinVar germline PHF6 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 100 flagged for review →

36 Pathogenic · 22 Likely pathogenic · 8 Conflicting · 17 Benign · 7 Benign/Likely benign · 78 Likely benign · 110 Uncertain significance

Full PHF6 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 100

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 3

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

Predictors lean, ClinVar uncertain 59

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

Predictors split 36

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

All PHF6 variants

Pathogenic 36

Likely pathogenic 22

Conflicting classifications of pathogenicity 8

  • c.729+4A>G Single submitter Inborn genetic diseases
  • p.Asn363= Single submitter Inborn genetic diseases
  • p.Asp309= Single submitter Inborn genetic diseases
  • p.His136Arg Single submitter Borjeson-Forssman-Lehmann syndrome ⚠
  • p.Ile230Val Single submitter Borjeson-Forssman-Lehmann syndrome ⚠
  • p.Lys349Glu Single submitter Inborn genetic diseases ⚠
  • p.Ser138= Single submitter Borjeson-Forssman-Lehmann syndrome
  • p.Thr78= Single submitter Borjeson-Forssman-Lehmann syndrome

Benign 17

Benign/Likely benign 7

  • c.138+10C>T Multiple submitters Borjeson-Forssman-Lehmann syndrome
  • c.139-11_139-7del Multiple submitters Borjeson-Forssman-Lehmann syndrome
  • c.730-11T>G Multiple submitters Borjeson-Forssman-Lehmann syndrome
  • p.His216= Multiple submitters Inborn genetic diseases
  • p.Ile92Val Multiple submitters Borjeson-Forssman-Lehmann syndrome
  • p.Lys133= Multiple submitters Borjeson-Forssman-Lehmann syndrome
  • p.Lys8= Multiple submitters Borjeson-Forssman-Lehmann syndrome

Likely benign 78

Uncertain significance 110