PEX3 — 426 ClinVar variants

All ClinVar germline PEX3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 134 flagged for review →

18 Pathogenic · 3 Pathogenic/Likely pathogenic · 18 Likely pathogenic · 14 Conflicting · 26 Benign · 7 Benign/Likely benign · 160 Likely benign · 180 Uncertain significance

Full PEX3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 134

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 4

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

Predictors lean, ClinVar uncertain 101

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

Predictors split 29

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

All PEX3 variants

Pathogenic 18

Pathogenic/Likely pathogenic 3

  • c.288-1G>A Multiple submitters peroxisome biogenesis disorder 10A (Zellweger)
  • p.Arg256Ter Multiple submitters PEX3-related disorder
  • p.Ser98fs Multiple submitters peroxisome biogenesis disorder 10A (Zellweger)

Likely pathogenic 18

  • c.942-1G>T Multiple submitters PEX3-related disorder
  • c.206-2A>G Single submitter
  • c.331+1G>C Single submitter peroxisome biogenesis disorder
  • c.332-1G>A Single submitter
  • c.332-2A>G Single submitter
  • c.456+1G>A Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • c.523+1G>A Single submitter
  • c.579-1G>A Single submitter PEX3-related disorder
  • c.818+1G>A Single submitter
  • p.Asp347Tyr Single submitter peroxisome biogenesis disorder
  • p.Glu44Ter Single submitter
  • p.Gly229Ter Single submitter peroxisome biogenesis disorder
  • p.Gly25Val Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Met1fs Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Met81fs Single submitter PEX3-related disorder
  • p.Pro158fs Single submitter PEX3-related disorder
  • p.Thr282Pro Single submitter peroxisome biogenesis disorder 10A (Zellweger) ⚠
  • p.Tyr48Ter Single submitter peroxisome biogenesis disorder 10A (Zellweger)

Conflicting classifications of pathogenicity 14

  • c.332-9T>A Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • c.456+3A>G Single submitter
  • c.578+8A>G Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • c.748-4A>G Single submitter
  • c.*220G>A Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Arg130Gln Single submitter ⚠
  • p.Asn265Ser Single submitter Inborn genetic diseases ⚠
  • p.Gln55= Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Gln83= Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Gly138Arg Single submitter peroxisome biogenesis disorder 1A (Zellweger) ⚠
  • p.Gly331Arg Single submitter PEX3-related disorder ⚠
  • p.Ile17= Single submitter peroxisome biogenesis disorder 10A (Zellweger)
  • p.Pro158Arg Single submitter peroxisome biogenesis disorder 10A (Zellweger) ⚠
  • p.Tyr32= Single submitter peroxisome biogenesis disorder 10A (Zellweger)

Benign 26

Benign/Likely benign 7

  • c.287+14dup Multiple submitters
  • c.332-16dup Multiple submitters
  • c.-4A>G Multiple submitters peroxisome biogenesis disorder 10A (Zellweger)
  • c.*205C>A Multiple submitters peroxisome biogenesis disorder 10A (Zellweger)
  • p.Arg286= Multiple submitters
  • p.Gln82Arg Multiple submitters peroxisome biogenesis disorder 10A (Zellweger)
  • p.Val336= Multiple submitters

Likely benign 160

Uncertain significance 180