GANAB — 620 ClinVar variants

All ClinVar germline GANAB variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 277 flagged for review →

17 Pathogenic · 7 Pathogenic/Likely pathogenic · 35 Likely pathogenic · 35 Conflicting · 22 Benign · 28 Benign/Likely benign · 178 Likely benign · 298 Uncertain significance

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

⚑ Evidence disagreements 277

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 17

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

Predictors lean, ClinVar uncertain 179

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 179

Predictors split 79

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

All GANAB variants

Pathogenic 17

  • p.Arg61Ter Multiple submitters GANAB-related disorder
  • p.Asp618fs Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.2624+2_2624+7del Single submitter
  • p.Arg437fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg864Ter Single submitter biliary tract disorder
  • p.Glu499Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gly252fs Single submitter
  • p.Gly761fs Single submitter
  • p.Leu167fs Single submitter
  • c.1936+1del No assertion criteria polycystic kidney disease 3 with or without polycystic liver disease
  • c.1936+1G>C No assertion criteria autosomal dominant polycystic liver disease
  • c.2725+4_2725+12del No assertion criteria POLYCYSTIC KIDNEY DISEASE 3 WITH POLYCYSTIC LIVER DISEASE
  • p.Arg590Pro No assertion criteria autosomal dominant polycystic liver disease
  • p.Asp207fs No assertion criteria autosomal dominant polycystic liver disease
  • p.Thr383Arg No assertion criteria POLYCYSTIC KIDNEY DISEASE 3 WITHOUT POLYCYSTIC LIVER DISEASE
  • p.Thr839Ile No assertion criteria polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Val4_Ala5del No assertion criteria autosomal dominant polycystic kidney disease

Pathogenic/Likely pathogenic 7

  • p.Arg164Ter Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg51fs Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg812Ter Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg815Ter Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gln414Ter Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gln837Ter Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Leu67fs Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease

Likely pathogenic 35

  • p.Arg112Ter Multiple submitters GANAB-related disorder
  • p.Arg817Trp Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Asn281fs Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.1150+1G>A Single submitter GANAB-related disorder
  • c.12_38+2del Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.1387-1G>A Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.1738-1G>A Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.2322+1G>A Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.560+444A>C Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.630+1G>A Single submitter
  • c.631-1G>T Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg110Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg173Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg455fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg49Ter Single submitter GANAB-related disorder
  • p.Arg596Cys Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg698Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg704Ter Single submitter
  • p.Gln215fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gln92Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gln95Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Glu482fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gly612Arg Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.His480fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Ile779fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Pro59fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Ser835fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Trp521fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Trp776Ter Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Tyr477His Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Tyr777fs Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg13Gln No assertion criteria autosomal dominant polycystic liver disease ⚠
  • p.Asp647Gly No assertion criteria autosomal dominant polycystic liver disease
  • p.Trp226Ter No assertion criteria polycystic kidney disease 3 with or without polycystic liver disease
  • p.Trp501Ter No assertion criteria GANAB-related disorder

Conflicting classifications of pathogenicity 35

  • c.2180+3G>A Single submitter
  • c.2398-12C>T Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.253-4G>T Single submitter
  • c.381-10T>C Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • c.560+441C>G Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Ala143Val Single submitter Inborn genetic diseases ⚠
  • p.Ala304Thr Single submitter Inborn genetic diseases ⚠
  • p.Ala8Val Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Arg133His Single submitter Inborn genetic diseases ⚠
  • p.Arg309Cys Single submitter chronic kidney disease ⚠
  • p.Arg404Trp Single submitter ⚠
  • p.Arg455His Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Arg857Cys Single submitter Inborn genetic diseases ⚠
  • p.Arg863His Single submitter ⚠
  • p.Arg944Pro Single submitter Inborn genetic diseases
  • p.Asn550Ser Single submitter Inborn genetic diseases ⚠
  • p.Asp778Glu Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gly476Ser Single submitter Inborn genetic diseases ⚠
  • p.Gly722= Single submitter polycystic kidney disease 3 with or without polycystic liver disease
  • p.Gly838Ala Single submitter Inborn genetic diseases ⚠
  • p.His785Asn Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Ile742Met Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Leu67Ile Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Leu74Phe Single submitter ⚠
  • p.Met98Val Single submitter ⚠
  • p.Pro111Arg Single submitter Inborn genetic diseases ⚠
  • p.Pro123Ala Single submitter Inborn genetic diseases ⚠
  • p.Pro307Arg Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Pro690Ala Single submitter Inborn genetic diseases ⚠
  • p.Ser798= Single submitter
  • p.Thr75Met Single submitter Inborn genetic diseases ⚠
  • p.Val19Ile Single submitter Inborn genetic diseases ⚠
  • p.Val7Gly Single submitter Inborn genetic diseases ⚠
  • p.Val85Met Single submitter polycystic kidney disease 3 with or without polycystic liver disease ⚠
  • p.Val88Met Single submitter Inborn genetic diseases ⚠

Benign 22

Benign/Likely benign 28

  • c.1386+18C>T Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.144-15C>T Multiple submitters
  • c.1594-9C>T Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.38+17C>T Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.380+15A>G Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • c.631-18C>T Multiple submitters
  • p.Ala751= Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Arg114His Multiple submitters
  • p.Arg154Trp Multiple submitters
  • p.Arg173Gln Multiple submitters
  • p.Arg354= Multiple submitters
  • p.Arg914Cys Multiple submitters
  • p.Asn306Ser Multiple submitters Inborn genetic diseases
  • p.Gln68Arg Multiple submitters
  • p.Gly395= Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.His419Tyr Multiple submitters
  • p.His850Tyr Multiple submitters
  • p.Leu342= Multiple submitters
  • p.Met338Val Multiple submitters
  • p.Phe605= Multiple submitters
  • p.Pro238= Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease
  • p.Thr440= Multiple submitters
  • p.Thr75Ala Multiple submitters
  • p.Thr83= Multiple submitters
  • p.Tyr489= Multiple submitters
  • p.Tyr530= Multiple submitters
  • p.Val25= Multiple submitters
  • p.Val725Ile Multiple submitters polycystic kidney disease 3 with or without polycystic liver disease

Likely benign 178

Uncertain significance 298