CPA6 — 244 ClinVar variants

All ClinVar germline CPA6 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 151 flagged for review →

3 Likely pathogenic · 17 Conflicting · 6 Benign · 3 Benign/Likely benign · 37 Likely benign · 178 Uncertain significance

Full CPA6 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 151

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 90

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

Predictors split 57

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

All CPA6 variants

Likely pathogenic 3

Conflicting classifications of pathogenicity 17

  • c.748-1G>A Single submitter febrile seizures, familial, 11
  • p.Ala270Val Single submitter familial temporal lobe epilepsy 5 ⚠
  • p.Ala307Val Single submitter familial temporal lobe epilepsy 5 ⚠
  • p.Arg311Gln Single submitter febrile seizures, familial, 11 ⚠
  • p.Arg311Ter Single submitter epilepsy
  • p.Arg36Cys Single submitter febrile seizures, familial, 11 ⚠
  • p.Arg36His Single submitter febrile seizures, familial, 11 ⚠
  • p.Gln207Glu Single submitter familial temporal lobe epilepsy 5 ⚠
  • p.Gly267Arg Single submitter familial temporal lobe epilepsy 5 ⚠
  • p.Phe21Ile Single submitter febrile seizures, familial, 11 ⚠
  • p.Pro301= Single submitter febrile seizures, familial, 11
  • p.Pro342= Single submitter febrile seizures, familial, 11
  • p.Trp19fs Single submitter febrile seizures, familial, 11
  • p.Trp253Ter Single submitter familial temporal lobe epilepsy 5
  • p.Tyr169His Single submitter febrile seizures, familial, 11 ⚠
  • p.Tyr33Cys Single submitter febrile seizures, familial, 11 ⚠
  • p.Val306Ile Single submitter febrile seizures, familial, 11 ⚠

Benign 6

  • c.637-3T>C Multiple submitters febrile seizures, familial, 11
  • p.Asn249Ser Multiple submitters familial temporal lobe epilepsy 5
  • p.Phe45Leu Multiple submitters febrile seizures, familial, 11
  • p.Ser173Cys Multiple submitters febrile seizures, familial, 11 ⚠
  • p.Asn271= Single submitter febrile seizures, familial, 11
  • p.Leu230= Single submitter febrile seizures, familial, 11

Benign/Likely benign 3

  • p.Ala325= Multiple submitters febrile seizures, familial, 11
  • p.Gln359= Multiple submitters febrile seizures, familial, 11
  • p.Leu413Phe Multiple submitters febrile seizures, familial, 11

Likely benign 37

  • c.*242T>C Multiple submitters familial temporal lobe epilepsy 5
  • c.*328A>G Multiple submitters familial temporal lobe epilepsy 5
  • c.1042-4A>C Single submitter febrile seizures, familial, 11
  • c.1127-7C>T Single submitter febrile seizures, familial, 11
  • c.117-9_117-5del Single submitter febrile seizures, familial, 11
  • c.193-4A>G Single submitter febrile seizures, familial, 11
  • c.317+8T>C Single submitter febrile seizures, familial, 11
  • p.Ala270= Single submitter
  • p.Ala319= Single submitter febrile seizures, familial, 11
  • p.Ala394= Single submitter febrile seizures, familial, 11
  • p.Ala424= Single submitter febrile seizures, familial, 11
  • p.Arg7= Single submitter febrile seizures, familial, 11
  • p.Arg8= Single submitter febrile seizures, familial, 11
  • p.Asn34= Single submitter febrile seizures, familial, 11
  • p.Asn89fs Single submitter febrile seizures, familial, 11
  • p.Cys193= Single submitter febrile seizures, familial, 11
  • p.Cys436= Single submitter febrile seizures, familial, 11
  • p.Gln207= Single submitter febrile seizures, familial, 11
  • p.Glu199= Single submitter febrile seizures, familial, 11
  • p.Glu78= Single submitter febrile seizures, familial, 11
  • p.His286= Single submitter febrile seizures, familial, 11
  • p.His85= Single submitter febrile seizures, familial, 11
  • p.Ile73= Single submitter
  • p.Ile86= Single submitter
  • p.Leu142= Single submitter febrile seizures, familial, 11
  • p.Leu177= Single submitter febrile seizures, familial, 11
  • p.Leu399= Single submitter febrile seizures, familial, 11
  • p.Leu4= Single submitter febrile seizures, familial, 11
  • p.Phe397= Single submitter febrile seizures, familial, 11
  • p.Pro287= Single submitter febrile seizures, familial, 11
  • p.Thr374= Single submitter febrile seizures, familial, 11
  • p.Tyr336= Single submitter
  • p.Tyr362= Single submitter febrile seizures, familial, 11
  • p.Tyr37= Single submitter febrile seizures, familial, 11
  • p.Val240= Single submitter febrile seizures, familial, 11
  • p.Val42= Single submitter
  • p.Tyr217His No assertion criteria intellectual disability ⚠

Uncertain significance 178