AMT — 720 ClinVar variants

All ClinVar germline AMT variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 207 flagged for review →

52 Pathogenic · 27 Pathogenic/Likely pathogenic · 56 Likely pathogenic · 36 Conflicting · 11 Benign · 4 Benign/Likely benign · 308 Likely benign · 226 Uncertain significance

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

⚑ Evidence disagreements 207

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 15

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

Predictors lean, ClinVar uncertain 88

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

Predictors split 104

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

All AMT variants

Pathogenic 52

Pathogenic/Likely pathogenic 27

  • c.259-2A>T Multiple submitters glycine encephalopathy
  • c.-58C>T Multiple submitters glycine encephalopathy
  • p.Ala328fs Multiple submitters glycine encephalopathy
  • p.Arg265Cys Multiple submitters glycine encephalopathy 1
  • p.Arg265His Multiple submitters glycine encephalopathy 2
  • p.Arg296Cys Multiple submitters glycine encephalopathy 1
  • p.Arg296His Multiple submitters glycine encephalopathy
  • p.Arg331Gln Multiple submitters glycine encephalopathy
  • p.Arg94Trp Multiple submitters glycine encephalopathy 2
  • p.Gln16Ter Multiple submitters glycine encephalopathy
  • p.Gln192Ter Multiple submitters glycine encephalopathy 1
  • p.Gly363Arg Multiple submitters glycine encephalopathy
  • p.Gly54_Trp55insTer Multiple submitters glycine encephalopathy 1
  • p.His42Arg Multiple submitters glycine encephalopathy 1
  • p.His71Pro Multiple submitters glycine encephalopathy 1
  • p.His75fs Multiple submitters glycine encephalopathy 2
  • p.Ile89fs Multiple submitters glycine encephalopathy 1
  • p.Leu179fs Multiple submitters glycine encephalopathy
  • p.Leu57fs Multiple submitters glycine encephalopathy
  • p.Lys151_Leu155del Multiple submitters glycine encephalopathy 2
  • p.Lys201fs Multiple submitters glycine encephalopathy
  • p.Met330fs Multiple submitters glycine encephalopathy
  • p.Met84fs Multiple submitters glycine encephalopathy 2
  • p.Ser353fs Multiple submitters glycine encephalopathy
  • p.Ser6fs Multiple submitters glycine encephalopathy
  • p.Ser77Leu Multiple submitters glycine encephalopathy 1
  • p.Val220fs Multiple submitters glycine encephalopathy

Likely pathogenic 56

Conflicting classifications of pathogenicity 36

Benign 11

Benign/Likely benign 4

  • c.-76G>C Multiple submitters glycine encephalopathy
  • p.Glu211Lys Multiple submitters glycine encephalopathy ⚠
  • p.Met300Val Multiple submitters glycine encephalopathy
  • p.Val170= Multiple submitters glycine encephalopathy 2

Likely benign 308

Showing the top 300 by review status; the full set is in the sitemap.

  • c.259-6C>T Multiple submitters glycine encephalopathy
  • p.Ala238= Multiple submitters glycine encephalopathy
  • p.Ala238Val Multiple submitters glycine encephalopathy ⚠
  • p.Arg297= Multiple submitters glycine encephalopathy
  • p.Asn121= Multiple submitters glycine encephalopathy
  • p.Asn145= Multiple submitters glycine encephalopathy
  • p.Gly184= Multiple submitters glycine encephalopathy
  • p.Gly293= Multiple submitters glycine encephalopathy
  • p.Leu127= Multiple submitters glycine encephalopathy
  • p.Pro185= Multiple submitters Inborn genetic diseases
  • p.Pro310= Multiple submitters glycine encephalopathy
  • p.Thr36= Multiple submitters glycine encephalopathy
  • c.1033+10C>T Single submitter glycine encephalopathy
  • c.1033+13G>C Single submitter glycine encephalopathy
  • c.1033+17A>G Single submitter glycine encephalopathy
  • c.1033+18G>A Single submitter glycine encephalopathy
  • c.1033+18G>C Single submitter glycine encephalopathy
  • c.1034-11T>G Single submitter glycine encephalopathy
  • c.1034-14T>C Single submitter glycine encephalopathy
  • c.1034-16T>C Single submitter glycine encephalopathy
  • c.1034-19G>A Single submitter glycine encephalopathy
  • c.1034-30_1034-18dup Single submitter glycine encephalopathy
  • c.1034-6T>C Single submitter glycine encephalopathy
  • c.1034-8C>T Single submitter glycine encephalopathy
  • c.258+10G>A Single submitter glycine encephalopathy
  • c.258+13A>G Single submitter glycine encephalopathy
  • c.258+14G>A Single submitter glycine encephalopathy
  • c.258+17C>T Single submitter glycine encephalopathy
  • c.258+19C>G Single submitter glycine encephalopathy
  • c.258+8del Single submitter glycine encephalopathy
  • c.259-13del Single submitter glycine encephalopathy
  • c.259-16T>C Single submitter glycine encephalopathy
  • c.259-20G>A Single submitter glycine encephalopathy
  • c.259-4C>T Single submitter glycine encephalopathy
  • c.259-8dup Single submitter glycine encephalopathy
  • c.259-9C>T Single submitter glycine encephalopathy
  • c.339+15T>C Single submitter glycine encephalopathy
  • c.339+17C>T Single submitter glycine encephalopathy
  • c.339+18T>G Single submitter glycine encephalopathy
  • c.339+8C>A Single submitter glycine encephalopathy
  • c.340-10T>C Single submitter glycine encephalopathy
  • c.340-12C>T Single submitter glycine encephalopathy
  • c.340-13A>T Single submitter glycine encephalopathy
  • c.340-17C>T Single submitter glycine encephalopathy
  • c.340-18G>A Single submitter glycine encephalopathy
  • c.340-19C>T Single submitter glycine encephalopathy
  • c.340-9del Single submitter glycine encephalopathy
  • c.340-9T>C Single submitter glycine encephalopathy
  • c.471+10C>G Single submitter glycine encephalopathy
  • c.471+10C>T Single submitter glycine encephalopathy
  • c.471+11T>C Single submitter glycine encephalopathy
  • c.471+14G>A Single submitter glycine encephalopathy
  • c.471+19C>A Single submitter glycine encephalopathy
  • c.471+20T>C Single submitter glycine encephalopathy
  • c.471+7C>G Single submitter glycine encephalopathy
  • c.471+7C>T Single submitter glycine encephalopathy
  • c.471+8C>T Single submitter glycine encephalopathy
  • c.471+9C>A Single submitter glycine encephalopathy
  • c.471+9C>G Single submitter glycine encephalopathy
  • c.471+9C>T Single submitter glycine encephalopathy
  • c.472-10T>C Single submitter glycine encephalopathy
  • c.472-11C>T Single submitter glycine encephalopathy
  • c.472-17G>C Single submitter glycine encephalopathy
  • c.472-19_472-18del Single submitter glycine encephalopathy
  • c.472-19T>C Single submitter glycine encephalopathy
  • c.472-6T>C Single submitter glycine encephalopathy
  • c.472-7C>T Single submitter glycine encephalopathy
  • c.472-8T>C Single submitter glycine encephalopathy
  • c.472-9G>A Single submitter glycine encephalopathy
  • c.550+10_550+15del Single submitter glycine encephalopathy
  • c.550+10C>G Single submitter glycine encephalopathy
  • c.550+12G>A Single submitter glycine encephalopathy
  • c.550+16T>C Single submitter glycine encephalopathy
  • c.550+17G>A Single submitter glycine encephalopathy
  • c.550+18G>C Single submitter glycine encephalopathy
  • c.550+7G>A Single submitter glycine encephalopathy
  • c.550+9G>A Single submitter glycine encephalopathy
  • c.550+9G>T Single submitter glycine encephalopathy
  • c.551-11C>T Single submitter glycine encephalopathy
  • c.551-15G>A Single submitter glycine encephalopathy
  • c.551-17T>C Single submitter glycine encephalopathy
  • c.551-20C>T Single submitter glycine encephalopathy
  • c.551-4C>T Single submitter glycine encephalopathy
  • c.551-6G>A Single submitter glycine encephalopathy
  • c.551-8G>C Single submitter glycine encephalopathy
  • c.551-9T>C Single submitter glycine encephalopathy
  • c.696+10G>A Single submitter glycine encephalopathy
  • c.696+10G>T Single submitter glycine encephalopathy
  • c.696+15G>A Single submitter glycine encephalopathy
  • c.696+16_696+18del Single submitter glycine encephalopathy
  • c.696+19T>C Single submitter glycine encephalopathy
  • c.696+20G>T Single submitter glycine encephalopathy
  • c.696+7C>T Single submitter glycine encephalopathy
  • c.696+9A>G Single submitter glycine encephalopathy
  • c.696+9A>T Single submitter glycine encephalopathy
  • c.697-10T>C Single submitter glycine encephalopathy
  • c.697-11G>A Single submitter glycine encephalopathy
  • c.697-17T>C Single submitter glycine encephalopathy
  • c.697-18C>T Single submitter glycine encephalopathy
  • c.697-19C>T Single submitter glycine encephalopathy
  • c.697-20C>T Single submitter glycine encephalopathy
  • c.697-35G>C Single submitter glycine encephalopathy
  • c.697-7C>T Single submitter glycine encephalopathy
  • c.697-8T>G Single submitter glycine encephalopathy
  • c.877+10G>A Single submitter glycine encephalopathy
  • c.877+16A>C Single submitter glycine encephalopathy
  • c.877+17C>T Single submitter glycine encephalopathy
  • c.877+18T>C Single submitter glycine encephalopathy
  • c.877+7T>G Single submitter glycine encephalopathy
  • c.877+9G>A Single submitter glycine encephalopathy
  • c.877+9G>C Single submitter glycine encephalopathy
  • c.878-11del Single submitter glycine encephalopathy
  • c.878-12G>A Single submitter glycine encephalopathy
  • c.878-15T>C Single submitter glycine encephalopathy
  • c.878-16_878-15del Single submitter glycine encephalopathy
  • c.878-16A>T Single submitter glycine encephalopathy
  • c.878-19C>G Single submitter glycine encephalopathy
  • c.878-19C>T Single submitter glycine encephalopathy
  • c.878-5T>G Single submitter glycine encephalopathy
  • c.878-6dup Single submitter glycine encephalopathy
  • c.878-7del Single submitter glycine encephalopathy
  • c.878-7T>C Single submitter glycine encephalopathy
  • c.878-8T>C Single submitter glycine encephalopathy
  • c.878-9A>G Single submitter glycine encephalopathy
  • c.90+10A>G Single submitter glycine encephalopathy
  • c.90+10A>T Single submitter glycine encephalopathy
  • c.90+12G>A Single submitter glycine encephalopathy
  • c.90+13G>A Single submitter glycine encephalopathy
  • c.90+20T>C Single submitter glycine encephalopathy
  • c.90+9G>C Single submitter glycine encephalopathy
  • c.91-10C>A Single submitter glycine encephalopathy
  • c.91-11G>A Single submitter glycine encephalopathy
  • c.91-14C>T Single submitter glycine encephalopathy
  • c.91-20C>G Single submitter glycine encephalopathy
  • c.91-7C>T Single submitter glycine encephalopathy
  • c.91-8G>A Single submitter glycine encephalopathy
  • c.*130G>T Single submitter glycine encephalopathy
  • c.*416C>T Single submitter glycine encephalopathy
  • p.Ala154= Single submitter glycine encephalopathy
  • p.Ala178= Single submitter glycine encephalopathy
  • p.Ala187= Single submitter glycine encephalopathy
  • p.Ala188= Single submitter glycine encephalopathy
  • p.Ala193= Single submitter glycine encephalopathy
  • p.Ala208= Single submitter glycine encephalopathy
  • p.Ala244= Single submitter glycine encephalopathy
  • p.Ala246= Single submitter glycine encephalopathy
  • p.Ala256= Single submitter glycine encephalopathy
  • p.Ala29= Single submitter glycine encephalopathy
  • p.Ala299= Single submitter glycine encephalopathy
  • p.Ala361= Single submitter glycine encephalopathy
  • p.Ala4= Single submitter glycine encephalopathy
  • p.Ala44= Single submitter glycine encephalopathy
  • p.Ala51= Single submitter glycine encephalopathy
  • p.Ala53= Single submitter glycine encephalopathy
  • p.Ala9= Single submitter glycine encephalopathy
  • p.Arg14= Single submitter glycine encephalopathy
  • p.Arg168= Single submitter glycine encephalopathy
  • p.Arg219= Single submitter glycine encephalopathy
  • p.Arg222= Single submitter glycine encephalopathy
  • p.Arg24= Single submitter glycine encephalopathy
  • p.Arg319= Single submitter glycine encephalopathy
  • p.Arg34= Single submitter glycine encephalopathy
  • p.Arg62= Single submitter glycine encephalopathy
  • p.Arg73= Single submitter
  • p.Arg94= Single submitter glycine encephalopathy
  • p.Asn134= Single submitter glycine encephalopathy
  • p.Asn165= Single submitter glycine encephalopathy
  • p.Asn177= Single submitter glycine encephalopathy
  • p.Asn359= Single submitter glycine encephalopathy
  • p.Asp129= Single submitter glycine encephalopathy
  • p.Asp158= Single submitter glycine encephalopathy
  • p.Asp197= Single submitter glycine encephalopathy
  • p.Asp229= Single submitter glycine encephalopathy
  • p.Asp262= Single submitter glycine encephalopathy
  • p.Asp80= Single submitter glycine encephalopathy
  • p.Asp93= Single submitter glycine encephalopathy
  • p.Cys218= Single submitter glycine encephalopathy
  • p.Cys223= Single submitter glycine encephalopathy
  • p.Cys271= Single submitter glycine encephalopathy
  • p.Cys351= Single submitter glycine encephalopathy
  • p.Cys367= Single submitter glycine encephalopathy
  • p.Cys76= Single submitter glycine encephalopathy
  • p.Gln192= Single submitter glycine encephalopathy
  • p.Gln2= Single submitter glycine encephalopathy
  • p.Gln74= Single submitter glycine encephalopathy
  • p.Glu108= Single submitter glycine encephalopathy
  • p.Glu150= Single submitter glycine encephalopathy
  • p.Glu162= Single submitter glycine encephalopathy
  • p.Glu173= Single submitter glycine encephalopathy
  • p.Glu211= Single submitter glycine encephalopathy
  • p.Glu228= Single submitter glycine encephalopathy
  • p.Glu252= Single submitter glycine encephalopathy
  • p.Glu285= Single submitter glycine encephalopathy
  • p.Glu368= Single submitter glycine encephalopathy
  • p.Glu99= Single submitter glycine encephalopathy
  • p.Gly124= Single submitter glycine encephalopathy
  • p.Gly138= Single submitter glycine encephalopathy
  • p.Gly147= Single submitter glycine encephalopathy
  • p.Gly167= Single submitter glycine encephalopathy
  • p.Gly194= Single submitter glycine encephalopathy
  • p.Gly214= Single submitter glycine encephalopathy
  • p.Gly217= Single submitter glycine encephalopathy
  • p.Gly227= Single submitter glycine encephalopathy
  • p.Gly230= Single submitter glycine encephalopathy
  • p.Gly257= Single submitter glycine encephalopathy
  • p.Gly269= Single submitter glycine encephalopathy
  • p.Gly274= Single submitter glycine encephalopathy
  • p.Gly363= Single submitter glycine encephalopathy
  • p.Gly46= Single submitter glycine encephalopathy
  • p.Gly47= Single submitter glycine encephalopathy
  • p.His280= Single submitter glycine encephalopathy
  • p.His42= Single submitter glycine encephalopathy
  • p.His45= Single submitter glycine encephalopathy
  • p.Ile131= Single submitter glycine encephalopathy
  • p.Ile233= Single submitter glycine encephalopathy
  • p.Ile336= Single submitter glycine encephalopathy
  • p.Leu101= Single submitter glycine encephalopathy
  • p.Leu116= Single submitter glycine encephalopathy
  • p.Leu15= Single submitter glycine encephalopathy
  • p.Leu153= Single submitter glycine encephalopathy
  • p.Leu163= Single submitter glycine encephalopathy
  • p.Leu172= Single submitter glycine encephalopathy
  • p.Leu175= Single submitter glycine encephalopathy
  • p.Leu180= Single submitter glycine encephalopathy
  • p.Leu182= Single submitter glycine encephalopathy
  • p.Leu199= Single submitter glycine encephalopathy
  • p.Leu22= Single submitter glycine encephalopathy
  • p.Leu255= Single submitter glycine encephalopathy
  • p.Leu258= Single submitter glycine encephalopathy
  • p.Leu26= Single submitter glycine encephalopathy
  • p.Leu266= Single submitter glycine encephalopathy
  • p.Leu270= Single submitter glycine encephalopathy
  • p.Leu33= Single submitter glycine encephalopathy
  • p.Leu337= Single submitter glycine encephalopathy
  • p.Leu376= Single submitter glycine encephalopathy
  • p.Leu377= Single submitter glycine encephalopathy
  • p.Leu402= Single submitter glycine encephalopathy
  • p.Leu43= Single submitter glycine encephalopathy
  • p.Leu57= Single submitter glycine encephalopathy
  • p.Leu90= Single submitter glycine encephalopathy
  • p.Leu97= Single submitter glycine encephalopathy
  • p.Lys159= Single submitter glycine encephalopathy
  • p.Lys313= Single submitter glycine encephalopathy
  • p.Lys343= Single submitter glycine encephalopathy
  • p.Lys96= Single submitter glycine encephalopathy
  • p.Phe119= Single submitter glycine encephalopathy
  • p.Phe18= Single submitter glycine encephalopathy
  • p.Phe302= Single submitter glycine encephalopathy
  • p.Phe41= Single submitter glycine encephalopathy
  • p.Phe52= Single submitter glycine encephalopathy
  • p.Pro19= Single submitter glycine encephalopathy
  • p.Pro19Ser Single submitter Inborn genetic diseases
  • p.Pro20= Single submitter glycine encephalopathy
  • p.Pro203= Single submitter glycine encephalopathy
  • p.Pro236= Single submitter glycine encephalopathy
  • p.Pro25= Single submitter glycine encephalopathy
  • p.Pro251= Single submitter glycine encephalopathy
  • p.Pro283= Single submitter glycine encephalopathy
  • p.Pro335= Single submitter glycine encephalopathy
  • p.Pro354= Single submitter glycine encephalopathy
  • p.Pro366= Single submitter glycine encephalopathy
  • p.Pro37= Single submitter glycine encephalopathy
  • p.Pro58= Single submitter glycine encephalopathy
  • p.Ser117= Single submitter glycine encephalopathy
  • p.Ser144= Single submitter glycine encephalopathy
  • p.Ser207= Single submitter glycine encephalopathy
  • p.Ser216= Single submitter glycine encephalopathy
  • p.Ser234= Single submitter glycine encephalopathy
  • p.Ser234Leu Single submitter glycine encephalopathy
  • p.Ser263= Single submitter glycine encephalopathy
  • p.Ser27= Single submitter glycine encephalopathy
  • p.Ser289= Single submitter glycine encephalopathy
  • p.Ser334= Single submitter glycine encephalopathy
  • p.Ser353= Single submitter glycine encephalopathy
  • p.Ser6= Single submitter glycine encephalopathy
  • p.Ser68= Single submitter glycine encephalopathy
  • p.Ser77= Single submitter glycine encephalopathy
  • p.Thr115= Single submitter glycine encephalopathy
  • p.Thr120= Single submitter glycine encephalopathy
  • p.Thr133= Single submitter glycine encephalopathy
  • p.Thr206= Single submitter glycine encephalopathy
  • p.Thr221= Single submitter glycine encephalopathy
  • p.Thr281= Single submitter glycine encephalopathy
  • p.Thr346= Single submitter glycine encephalopathy
  • p.Thr374= Single submitter glycine encephalopathy
  • p.Thr397= Single submitter glycine encephalopathy
  • p.Thr401= Single submitter glycine encephalopathy
  • p.Thr66= Single submitter glycine encephalopathy
  • p.Thr72= Single submitter glycine encephalopathy
  • p.Thr87= Single submitter glycine encephalopathy
  • p.Tyr141= Single submitter glycine encephalopathy
  • p.Tyr364= Single submitter glycine encephalopathy
  • p.Tyr399= Single submitter glycine encephalopathy
  • p.Tyr61= Single submitter glycine encephalopathy
  • p.Val102= Single submitter glycine encephalopathy
  • p.Val174= Single submitter glycine encephalopathy
  • p.Val195= Single submitter glycine encephalopathy
  • p.Val231= Single submitter glycine encephalopathy
  • p.Val235= Single submitter glycine encephalopathy
  • p.Val284= Single submitter glycine encephalopathy

Uncertain significance 226