D2HGDH — 437 ClinVar variants

All ClinVar germline D2HGDH variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 163 flagged for review →

14 Pathogenic · 3 Pathogenic/Likely pathogenic · 13 Likely pathogenic · 39 Conflicting · 37 Benign · 23 Benign/Likely benign · 118 Likely benign · 190 Uncertain significance

Full D2HGDH gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 163

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 1

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

Predictors agree, ClinVar conflicts 18

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

Predictors lean, ClinVar uncertain 91

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

Predictors split 53

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

All D2HGDH variants

Pathogenic 14

  • p.Tyr180Ter Multiple submitters Inborn genetic diseases
  • c.1306+1del Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg215fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asn132fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Glu110fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Phe296fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser343fs Single submitter D-2-hydroxyglutaric aciduria
  • p.Ser452fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Thr465fs Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Trp24Ter Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Val444Ala Single submitter D-2-hydroxyglutaric aciduria 1
  • c.293-23A>G No assertion criteria D-2-hydroxyglutaric aciduria 1
  • p.Asn439Asp No assertion criteria D-2-hydroxyglutaric aciduria 1
  • p.Ile147Ser No assertion criteria D-2-hydroxyglutaric aciduria 1

Pathogenic/Likely pathogenic 3

  • c.685-2A>G Multiple submitters D2HGDH-related disorders
  • p.Gln169Ter Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ser109Trp Multiple submitters D-2-hydroxyglutaric aciduria 1 ⚠

Likely pathogenic 13

Conflicting classifications of pathogenicity 39

  • c.1140+8G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1141-12C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1306+15G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1306+7G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.854-7G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.854-8C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.-92-4C>G Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala347Thr Single submitter Inborn genetic diseases ⚠
  • p.Ala361= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala420Thr Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Ala474Val Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Arg152Leu Single submitter Inborn genetic diseases ⚠
  • p.Arg395Gln Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Arg395Trp Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Arg419= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg419Cys Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Arg419His Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Asn346Thr Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Cys172Tyr Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Glu463Lys Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Gly16Cys Single submitter Inborn genetic diseases ⚠
  • p.His220Arg Single submitter Inborn genetic diseases ⚠
  • p.Ile256= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ile340Val Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Leu505= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Lys482= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Pro189Leu Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Ser109= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser471= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Thr108= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Thr298Ile Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Thr374= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Tyr180= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Val140Ile Single submitter Inborn genetic diseases ⚠
  • p.Val142Ile Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Val173Ile Single submitter D-2-hydroxyglutaric aciduria 1 ⚠
  • p.Val321= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Val415Met Single submitter Inborn genetic diseases ⚠
  • p.Val485Ile Single submitter Inborn genetic diseases ⚠

Benign 37

Benign/Likely benign 23

  • c.1307-15C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.1307-19T>C Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.490+16C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.490+20C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.491-18C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.685-9T>C Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ala361Val Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ala426Thr Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Arg15Gly Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Arg55Gln Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Asp144= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Asp369= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Gly355Ser Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Gly436= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.His356Tyr Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Leu31= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Pro141= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Pro330= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Pro492= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Thr240= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Thr465= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Tyr462= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Val338Ile Multiple submitters D-2-hydroxyglutaric aciduria 1

Likely benign 118

  • c.1306+10G>A Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.1306+14C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.350+18G>A Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.490+9G>A Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.685-7C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.997+18_997+19del Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.997+18A>G Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.*40C>T Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ala466= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Arg26Trp Multiple submitters Inborn genetic diseases
  • p.Asn203= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Asn280= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Asp66= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Glu463= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Gly397= Multiple submitters
  • p.His434= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.His476= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ile414= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Leu501= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ser308= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ser38= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ser394= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Ser452= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Thr247= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Tyr337= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • p.Tyr402= Multiple submitters D-2-hydroxyglutaric aciduria 1
  • c.1140+19G>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1141-14G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1141-15C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1141-62_1141-61insT Single submitter
  • c.1306+11C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.1306+9C>T Single submitter
  • c.293-13C>T Single submitter
  • c.293-18A>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.293-19G>A Single submitter
  • c.351-18C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.351-20C>G Single submitter D-2-hydroxyglutaric aciduria 1
  • c.351-8C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.490+18G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.684+12C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.684+8G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.685-20G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.685-9_685-8inv Single submitter D-2-hydroxyglutaric aciduria 1
  • c.854-19A>G Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+10C>G Single submitter
  • c.997+11C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+12C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+13C>G Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+17C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+18A>C Single submitter D-2-hydroxyglutaric aciduria 1
  • c.997+8C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.998-3T>C Single submitter
  • c.998-7C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • c.*410G>A Single submitter D-2-hydroxyglutaric aciduria 1
  • c.*474C>T Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala125= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala205= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala231= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala32Val Single submitter Inborn genetic diseases
  • p.Ala384= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala474= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ala68= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg152= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg179= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg277= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Arg481Lys Single submitter Inborn genetic diseases
  • p.Arg56= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asn207= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asn346= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asp232= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asp350= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asp413= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asp417= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Asp484= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Cys119= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Cys172= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Cys37Ser Single submitter Inborn genetic diseases
  • p.Glu291= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Gly19= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Gly225= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Gly263= Single submitter
  • p.Gly29= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Gly467= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Gly76= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.His114= Single submitter
  • p.His360= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.His425= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.His428= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.His441= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.His460= Single submitter
  • p.Ile146= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ile200= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu13= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu157= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu293= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu404= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu422= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Leu511= Single submitter
  • p.Phe159= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Phe310= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Phe357= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Pro189= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Pro424= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Pro46= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Pro513= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser149= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser161= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser364= Single submitter
  • p.Ser473= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Ser60= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Thr298= Single submitter
  • p.Thr516= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Tyr398= Single submitter
  • p.Val140= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Val223= Single submitter D-2-hydroxyglutaric aciduria 1
  • p.Val331= Single submitter
  • p.Val461= Single submitter
  • p.Glu305= No assertion criteria D2HGDH-related disorder

Uncertain significance 190