PCK2 — 323 ClinVar variants

All ClinVar germline PCK2 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 179 flagged for review →

3 Likely pathogenic · 9 Conflicting · 11 Benign · 7 Benign/Likely benign · 78 Likely benign · 215 Uncertain significance

Full PCK2 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 179

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 3

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

Predictors lean, ClinVar uncertain 132

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 PCK2 variants

Likely pathogenic 3

  • p.Leu218fs Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial
  • p.Gly154fs No assertion criteria
  • p.Met152fs No assertion criteria

Conflicting classifications of pathogenicity 9

  • c.1234+1G>T Single submitter phosphoenolpyruvate carboxykinase deficiency
  • c.1468+2T>C Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial
  • p.Arg142Gln Single submitter ⚠
  • p.Arg193Ter Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial
  • p.Arg340Ter Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial
  • p.Arg469Cys Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial ⚠
  • p.Gly586Ser Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial ⚠
  • p.Ile268Val Single submitter ⚠
  • p.Ser23Ter Single submitter phosphoenolpyruvate carboxykinase deficiency, mitochondrial

Benign 11

Benign/Likely benign 7

Likely benign 78

Uncertain significance 215