AGA — 545 ClinVar variants

All ClinVar germline AGA variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 124 flagged for review →

33 Pathogenic · 26 Pathogenic/Likely pathogenic · 58 Likely pathogenic · 11 Conflicting · 35 Benign · 10 Benign/Likely benign · 235 Likely benign · 137 Uncertain significance

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

⚑ Evidence disagreements 124

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 4

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 2

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

Predictors lean, ClinVar uncertain 47

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

Predictors split 71

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

All AGA variants

Pathogenic 33

  • c.128-2A>G Multiple submitters aspartylglucosaminuria
  • p.Ala19fs Multiple submitters aspartylglucosaminuria
  • p.Arg107Ter Multiple submitters aspartylglucosaminuria
  • p.Cys163Ser Multiple submitters aspartylglucosaminuria
  • p.Glu67fs Multiple submitters aspartylglucosaminuria
  • p.Met63fs Multiple submitters aspartylglucosaminuria
  • p.Ser72Pro Multiple submitters aspartylglucosaminuria
  • p.Trp34fs Multiple submitters aspartylglucosaminuria
  • c.623-1G>A Single submitter aspartylglucosaminuria
  • c.698+1del Single submitter aspartylglucosaminuria
  • c.940+1G>A Single submitter aspartylglucosaminuria
  • p.Arg116Gln Single submitter aspartylglucosaminuria ⚠
  • p.Asn170fs Single submitter aspartylglucosaminuria
  • p.Asn32Lys Single submitter intellectual disability
  • p.Asn38Ter Single submitter intellectual disability
  • p.Asp174fs Single submitter aspartylglucosaminuria
  • p.Asp70fs Single submitter aspartylglucosaminuria
  • p.Gln137Ter Single submitter aspartylglucosaminuria
  • p.Gln287Ter Single submitter aspartylglucosaminuria
  • p.Gln68Ter Single submitter aspartylglucosaminuria
  • p.Glu58Ter Single submitter aspartylglucosaminuria
  • p.Gly186fs Single submitter aspartylglucosaminuria
  • p.Leu267fs Single submitter aspartylglucosaminuria
  • p.Leu29fs Single submitter aspartylglucosaminuria
  • p.Lys4fs Single submitter aspartylglucosaminuria
  • p.Met90fs Single submitter aspartylglucosaminuria
  • p.Pro28Leu Single submitter aspartylglucosaminuria ⚠
  • p.Ser72_Val73insTer Single submitter aspartylglucosaminuria
  • p.Thr222fs Single submitter aspartylglucosaminuria
  • p.Trp158Ter Single submitter aspartylglucosaminuria
  • p.Trp168Ter Single submitter aspartylglucosaminuria
  • p.Val30fs Single submitter aspartylglucosaminuria
  • p.Gly302Arg No assertion criteria aspartylglucosaminuria

Pathogenic/Likely pathogenic 26

Likely pathogenic 58

  • c.127+1G>A Multiple submitters aspartylglucosaminuria
  • c.127+1G>T Multiple submitters aspartylglucosaminuria
  • c.281+1G>T Multiple submitters aspartylglucosaminuria
  • c.508-2A>C Multiple submitters aspartylglucosaminuria
  • c.508-2A>G Multiple submitters aspartylglucosaminuria
  • p.Glu199fs Multiple submitters aspartylglucosaminuria
  • p.Glu67Ter Multiple submitters aspartylglucosaminuria
  • p.Gly100Glu Multiple submitters aspartylglucosaminuria
  • p.Gly60Asp Multiple submitters aspartylglucosaminuria
  • p.Trp44Ter Multiple submitters aspartylglucosaminuria
  • c.128-2A>C Single submitter aspartylglucosaminuria
  • c.281+1G>A Single submitter aspartylglucosaminuria
  • c.282-2A>G Single submitter aspartylglucosaminuria
  • c.385_394+15del Single submitter aspartylglucosaminuria
  • c.394+1G>A Single submitter Inborn genetic diseases
  • c.507+1G>C Single submitter aspartylglucosaminuria
  • c.508-1G>T Single submitter aspartylglucosaminuria
  • c.623-1G>T Single submitter aspartylglucosaminuria
  • c.698+1G>A Single submitter aspartylglucosaminuria
  • c.698+2T>C Single submitter aspartylglucosaminuria
  • c.698+2T>G Single submitter aspartylglucosaminuria
  • c.699-1G>C Single submitter aspartylglucosaminuria
  • c.807-1G>A Single submitter aspartylglucosaminuria
  • c.940+1G>C Single submitter aspartylglucosaminuria
  • c.941-1G>T Single submitter aspartylglucosaminuria
  • p.Asn38fs Single submitter aspartylglucosaminuria
  • p.Cys306Arg Single submitter aspartylglucosaminuria
  • p.Gln68fs Single submitter aspartylglucosaminuria
  • p.Ile240fs Single submitter aspartylglucosaminuria
  • p.Leu126fs Single submitter aspartylglucosaminuria
  • p.Leu127fs Single submitter aspartylglucosaminuria
  • p.Leu15fs Single submitter aspartylglucosaminuria
  • p.Lys109Ter Single submitter aspartylglucosaminuria
  • p.Lys37fs Single submitter aspartylglucosaminuria
  • p.Lys4Ter Single submitter aspartylglucosaminuria
  • p.Met1Ile Single submitter aspartylglucosaminuria
  • p.Met1Thr Single submitter aspartylglucosaminuria
  • p.Phe135Ser Single submitter aspartylglucosaminuria
  • p.Pro185fs Single submitter aspartylglucosaminuria
  • p.Pro28fs Single submitter aspartylglucosaminuria
  • p.Ser147fs Single submitter aspartylglucosaminuria
  • p.Trp158fs Single submitter aspartylglucosaminuria
  • p.Tyr246fs Single submitter aspartylglucosaminuria
  • p.Tyr275Ter Single submitter aspartylglucosaminuria
  • p.Val128fs Single submitter aspartylglucosaminuria
  • p.Val235fs Single submitter aspartylglucosaminuria
  • c.623-2A>G No assertion criteria aspartylglucosaminuria
  • c.941-2A>G No assertion criteria aspartylglucosaminuria
  • p.Cys64Ter No assertion criteria aspartylglucosaminuria
  • p.Gln164Ter No assertion criteria aspartylglucosaminuria
  • p.Glu41Ter No assertion criteria aspartylglucosaminuria
  • p.Gly252Arg No assertion criteria aspartylglucosaminuria
  • p.His124fs No assertion criteria aspartylglucosaminuria
  • p.Ile262_Leu263insTer No assertion criteria aspartylglucosaminuria
  • p.Leu10fs No assertion criteria aspartylglucosaminuria
  • p.Leu15Arg No assertion criteria aspartylglucosaminuria ⚠
  • p.Ser24fs No assertion criteria aspartylglucosaminuria
  • p.Tyr331Ter No assertion criteria aspartylglucosaminuria

Conflicting classifications of pathogenicity 11

Benign 35

Benign/Likely benign 10

  • c.281+13T>G Multiple submitters aspartylglucosaminuria
  • c.622+13T>C Multiple submitters aspartylglucosaminuria
  • c.623-7C>T Multiple submitters aspartylglucosaminuria
  • p.Ala101= Multiple submitters Inborn genetic diseases
  • p.Arg161Gln Multiple submitters aspartylglucosaminuria
  • p.Glu341= Multiple submitters aspartylglucosaminuria
  • p.Leu105Ile Multiple submitters aspartylglucosaminuria
  • p.Lys4Gln Multiple submitters aspartylglucosaminuria
  • p.Phe301Ser Multiple submitters aspartylglucosaminuria ⚠
  • p.Thr322Ile Multiple submitters aspartylglucosaminuria ⚠

Likely benign 235

  • c.282-157G>C Multiple submitters
  • p.Cys179= Multiple submitters aspartylglucosaminuria
  • p.Leu11= Multiple submitters aspartylglucosaminuria
  • p.Phe326= Multiple submitters Inborn genetic diseases
  • p.Pro28= Multiple submitters aspartylglucosaminuria
  • p.Val57= Multiple submitters Inborn genetic diseases
  • c.127+10G>A Single submitter aspartylglucosaminuria
  • c.127+11G>A Single submitter aspartylglucosaminuria
  • c.127+12C>T Single submitter aspartylglucosaminuria
  • c.127+13G>A Single submitter aspartylglucosaminuria
  • c.127+14G>A Single submitter aspartylglucosaminuria
  • c.127+15C>T Single submitter aspartylglucosaminuria
  • c.127+16C>G Single submitter aspartylglucosaminuria
  • c.127+16C>T Single submitter aspartylglucosaminuria
  • c.127+203C>T Single submitter
  • c.127+8T>C Single submitter aspartylglucosaminuria
  • c.127+9T>C Single submitter aspartylglucosaminuria
  • c.128-14G>A Single submitter aspartylglucosaminuria
  • c.128-14G>C Single submitter aspartylglucosaminuria
  • c.128-18T>A Single submitter aspartylglucosaminuria
  • c.128-18T>C Single submitter aspartylglucosaminuria
  • c.128-19A>G Single submitter aspartylglucosaminuria
  • c.128-267C>T Single submitter
  • c.128-7dup Single submitter aspartylglucosaminuria
  • c.281+11C>T Single submitter aspartylglucosaminuria
  • c.281+12G>A Single submitter aspartylglucosaminuria
  • c.281+15C>G Single submitter aspartylglucosaminuria
  • c.281+18G>A Single submitter aspartylglucosaminuria
  • c.281+18G>T Single submitter aspartylglucosaminuria
  • c.281+8C>T Single submitter aspartylglucosaminuria
  • c.281+9A>G Single submitter aspartylglucosaminuria
  • c.282-10T>C Single submitter aspartylglucosaminuria
  • c.282-12A>G Single submitter aspartylglucosaminuria
  • c.282-17A>T Single submitter aspartylglucosaminuria
  • c.282-19G>A Single submitter aspartylglucosaminuria
  • c.282-6T>C Single submitter aspartylglucosaminuria
  • c.282-9T>G Single submitter aspartylglucosaminuria
  • c.394+10T>G Single submitter aspartylglucosaminuria
  • c.394+13C>T Single submitter aspartylglucosaminuria
  • c.394+14T>C Single submitter aspartylglucosaminuria
  • c.394+18C>G Single submitter aspartylglucosaminuria
  • c.394+18C>T Single submitter aspartylglucosaminuria
  • c.394+20_394+21del Single submitter aspartylglucosaminuria
  • c.394+285C>A Single submitter
  • c.394+7_394+10del Single submitter aspartylglucosaminuria
  • c.394+8T>C Single submitter aspartylglucosaminuria
  • c.394+9T>C Single submitter aspartylglucosaminuria
  • c.395-11C>G Single submitter aspartylglucosaminuria
  • c.395-14T>A Single submitter aspartylglucosaminuria
  • c.395-155G>A Single submitter
  • c.395-19C>G Single submitter aspartylglucosaminuria
  • c.395-254C>T Single submitter
  • c.395-4C>G Single submitter aspartylglucosaminuria
  • c.395-4C>T Single submitter aspartylglucosaminuria
  • c.395-5T>C Single submitter aspartylglucosaminuria
  • c.395-6C>A Single submitter aspartylglucosaminuria
  • c.395-7T>C Single submitter aspartylglucosaminuria
  • c.395-9A>T Single submitter aspartylglucosaminuria
  • c.507+10C>T Single submitter aspartylglucosaminuria
  • c.507+11A>T Single submitter aspartylglucosaminuria
  • c.507+16del Single submitter aspartylglucosaminuria
  • c.507+19T>G Single submitter aspartylglucosaminuria
  • c.507+20A>T Single submitter aspartylglucosaminuria
  • c.507+7A>G Single submitter aspartylglucosaminuria
  • c.507+8C>T Single submitter aspartylglucosaminuria
  • c.507+9A>T Single submitter aspartylglucosaminuria
  • c.508-14A>C Single submitter aspartylglucosaminuria
  • c.508-16T>A Single submitter aspartylglucosaminuria
  • c.508-16T>G Single submitter aspartylglucosaminuria
  • c.508-18C>G Single submitter aspartylglucosaminuria
  • c.508-18C>T Single submitter aspartylglucosaminuria
  • c.508-193G>A Single submitter
  • c.508-7T>C Single submitter aspartylglucosaminuria
  • c.622+252del Single submitter
  • c.622+9_622+15dup Single submitter aspartylglucosaminuria
  • c.623-173C>T Single submitter
  • c.623-17T>C Single submitter aspartylglucosaminuria
  • c.623-18T>G Single submitter aspartylglucosaminuria
  • c.623-284C>T Single submitter
  • c.623-4C>G Single submitter aspartylglucosaminuria
  • c.623-6T>C Single submitter aspartylglucosaminuria
  • c.623-9A>C Single submitter aspartylglucosaminuria
  • c.698+10T>C Single submitter aspartylglucosaminuria
  • c.698+11C>A Single submitter aspartylglucosaminuria
  • c.698+13A>G Single submitter aspartylglucosaminuria
  • c.698+14A>G Single submitter aspartylglucosaminuria
  • c.698+19A>C Single submitter aspartylglucosaminuria
  • c.698+20C>T Single submitter aspartylglucosaminuria
  • c.698+7G>C Single submitter aspartylglucosaminuria
  • c.699-11C>A Single submitter aspartylglucosaminuria
  • c.699-11C>T Single submitter aspartylglucosaminuria
  • c.699-12A>G Single submitter aspartylglucosaminuria
  • c.699-17T>C Single submitter aspartylglucosaminuria
  • c.699-5C>T Single submitter aspartylglucosaminuria
  • c.699-9C>G Single submitter aspartylglucosaminuria
  • c.699-9C>T Single submitter aspartylglucosaminuria
  • c.806+11T>C Single submitter aspartylglucosaminuria
  • c.806+11T>G Single submitter aspartylglucosaminuria
  • c.806+12T>A Single submitter aspartylglucosaminuria
  • c.806+13dup Single submitter aspartylglucosaminuria
  • c.806+14G>C Single submitter aspartylglucosaminuria
  • c.806+19T>C Single submitter aspartylglucosaminuria
  • c.806+20G>A Single submitter aspartylglucosaminuria
  • c.806+232A>G Single submitter
  • c.806+7C>A Single submitter aspartylglucosaminuria
  • c.806+7C>T Single submitter aspartylglucosaminuria
  • c.807-11G>C Single submitter aspartylglucosaminuria
  • c.807-13del Single submitter aspartylglucosaminuria
  • c.807-15C>T Single submitter aspartylglucosaminuria
  • c.807-17A>C Single submitter aspartylglucosaminuria
  • c.807-8T>A Single submitter aspartylglucosaminuria
  • c.940+13T>C Single submitter aspartylglucosaminuria
  • c.940+20T>C Single submitter aspartylglucosaminuria
  • c.940+8G>A Single submitter aspartylglucosaminuria
  • c.940+8G>T Single submitter aspartylglucosaminuria
  • c.940+9T>C Single submitter aspartylglucosaminuria
  • c.941-17C>T Single submitter aspartylglucosaminuria
  • c.941-20T>C Single submitter aspartylglucosaminuria
  • c.941-243CAA[3] Single submitter
  • c.941-253G>A Single submitter
  • c.941-5C>T Single submitter aspartylglucosaminuria
  • c.941-7G>T Single submitter aspartylglucosaminuria
  • c.941-8G>T Single submitter aspartylglucosaminuria
  • p.Ala19= Single submitter aspartylglucosaminuria
  • p.Ala219= Single submitter aspartylglucosaminuria
  • p.Ala247= Single submitter aspartylglucosaminuria
  • p.Ala272= Single submitter aspartylglucosaminuria
  • p.Ala316= Single submitter aspartylglucosaminuria
  • p.Ala43= Single submitter aspartylglucosaminuria
  • p.Ala46= Single submitter aspartylglucosaminuria
  • p.Ala53= Single submitter aspartylglucosaminuria
  • p.Ala56= Single submitter aspartylglucosaminuria
  • p.Ala62= Single submitter aspartylglucosaminuria
  • p.Arg107= Single submitter aspartylglucosaminuria
  • p.Arg116= Single submitter aspartylglucosaminuria
  • p.Arg22= Single submitter aspartylglucosaminuria
  • p.Arg265= Single submitter aspartylglucosaminuria
  • p.Arg45= Single submitter aspartylglucosaminuria
  • p.Asn110= Single submitter aspartylglucosaminuria
  • p.Asn170= Single submitter aspartylglucosaminuria
  • p.Asn6= Single submitter aspartylglucosaminuria
  • p.Asp145= Single submitter aspartylglucosaminuria
  • p.Asp157= Single submitter aspartylglucosaminuria
  • p.Asp200= Single submitter aspartylglucosaminuria
  • p.Asp205= Single submitter Inborn genetic diseases
  • p.Asp237= Single submitter aspartylglucosaminuria
  • p.Asp249Asn Single submitter aspartylglucosaminuria
  • p.Asp55= Single submitter aspartylglucosaminuria
  • p.Asp70= Single submitter aspartylglucosaminuria
  • p.Asp80= Single submitter aspartylglucosaminuria
  • p.Asp93= Single submitter aspartylglucosaminuria
  • p.Cys163= Single submitter aspartylglucosaminuria
  • p.Cys306= Single submitter aspartylglucosaminuria
  • p.Gln137= Single submitter aspartylglucosaminuria
  • p.Gln190= Single submitter aspartylglucosaminuria
  • p.Gln68= Single submitter aspartylglucosaminuria
  • p.Glu144= Single submitter aspartylglucosaminuria
  • p.Glu274= Single submitter aspartylglucosaminuria
  • p.Glu299= Single submitter aspartylglucosaminuria
  • p.Gly140= Single submitter aspartylglucosaminuria
  • p.Gly180= Single submitter aspartylglucosaminuria
  • p.Gly208= Single submitter aspartylglucosaminuria
  • p.Gly236= Single submitter aspartylglucosaminuria
  • p.Gly252= Single submitter aspartylglucosaminuria
  • p.Gly258= Single submitter aspartylglucosaminuria
  • p.Gly260= Single submitter aspartylglucosaminuria
  • p.Gly279= Single submitter aspartylglucosaminuria
  • p.Gly302= Single submitter aspartylglucosaminuria
  • p.Gly50= Single submitter aspartylglucosaminuria
  • p.Gly51= Single submitter aspartylglucosaminuria
  • p.Gly74= Single submitter aspartylglucosaminuria
  • p.His195= Single submitter aspartylglucosaminuria
  • p.His232= Single submitter aspartylglucosaminuria
  • p.Ile142= Single submitter aspartylglucosaminuria
  • p.Ile194= Single submitter aspartylglucosaminuria
  • p.Ile212= Single submitter aspartylglucosaminuria
  • p.Ile284= Single submitter aspartylglucosaminuria
  • p.Ile290= Single submitter aspartylglucosaminuria
  • p.Ile293= Single submitter aspartylglucosaminuria
  • p.Ile346= Single submitter aspartylglucosaminuria
  • p.Leu15= Single submitter aspartylglucosaminuria
  • p.Leu16= Single submitter aspartylglucosaminuria
  • p.Leu20= Single submitter aspartylglucosaminuria
  • p.Leu263= Single submitter aspartylglucosaminuria
  • p.Leu267= Single submitter aspartylglucosaminuria
  • p.Leu27= Single submitter aspartylglucosaminuria
  • p.Leu320= Single submitter aspartylglucosaminuria
  • p.Leu54= Single submitter aspartylglucosaminuria
  • p.Leu7= Single submitter aspartylglucosaminuria
  • p.Leu87= Single submitter aspartylglucosaminuria
  • p.Lys183= Single submitter aspartylglucosaminuria
  • p.Phe229= Single submitter aspartylglucosaminuria
  • p.Pro181= Single submitter aspartylglucosaminuria
  • p.Pro184= Single submitter aspartylglucosaminuria
  • p.Pro241= Single submitter aspartylglucosaminuria
  • p.Pro298= Single submitter aspartylglucosaminuria
  • p.Pro35= Single submitter aspartylglucosaminuria
  • p.Pro8= Single submitter aspartylglucosaminuria
  • p.Ser151= Single submitter aspartylglucosaminuria
  • p.Ser176= Single submitter aspartylglucosaminuria
  • p.Ser24= Single submitter aspartylglucosaminuria
  • p.Ser25= Single submitter aspartylglucosaminuria
  • p.Ser312= Single submitter aspartylglucosaminuria
  • p.Ser333= Single submitter aspartylglucosaminuria
  • p.Ser5= Single submitter aspartylglucosaminuria
  • p.Ser59= Single submitter aspartylglucosaminuria
  • p.Ser72= Single submitter aspartylglucosaminuria
  • p.Ter347= Single submitter aspartylglucosaminuria
  • p.Thr134= Single submitter aspartylglucosaminuria
  • p.Thr149Ser Single submitter aspartylglucosaminuria
  • p.Thr215= Single submitter aspartylglucosaminuria
  • p.Thr250= Single submitter aspartylglucosaminuria
  • p.Thr257= Single submitter aspartylglucosaminuria
  • p.Thr322= Single submitter aspartylglucosaminuria
  • p.Thr33= Single submitter aspartylglucosaminuria
  • p.Thr339= Single submitter aspartylglucosaminuria
  • p.Thr40= Single submitter aspartylglucosaminuria
  • p.Thr96Ser Single submitter aspartylglucosaminuria
  • p.Tyr167= Single submitter aspartylglucosaminuria
  • p.Tyr178= Single submitter aspartylglucosaminuria
  • p.Tyr246= Single submitter aspartylglucosaminuria
  • p.Tyr270= Single submitter aspartylglucosaminuria
  • p.Val102= Single submitter aspartylglucosaminuria
  • p.Val21= Single submitter aspartylglucosaminuria
  • p.Val235= Single submitter aspartylglucosaminuria
  • p.Val289= Single submitter aspartylglucosaminuria
  • p.Val30= Single submitter aspartylglucosaminuria
  • p.Val31= Single submitter aspartylglucosaminuria
  • p.Val73= Single submitter aspartylglucosaminuria
  • p.Val9= Single submitter aspartylglucosaminuria
  • c.127+22G>A No assertion criteria
  • c.622+8G>T No assertion criteria AGA-related disorder
  • c.698+27C>T No assertion criteria
  • p.Pro26= No assertion criteria aspartylglucosaminuria
  • p.Thr324Ile No assertion criteria intellectual disability ⚠

Uncertain significance 137