COASY — 386 ClinVar variants

All ClinVar germline COASY variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 187 flagged for review →

16 Pathogenic · 3 Pathogenic/Likely pathogenic · 11 Likely pathogenic · 13 Conflicting · 11 Benign · 3 Benign/Likely benign · 135 Likely benign · 194 Uncertain significance

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

⚑ Evidence disagreements 187

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 2

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

Predictors lean, ClinVar uncertain 80

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

Predictors split 103

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

All COASY variants

Pathogenic 16

  • p.Arg499Cys Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Gln523Ter Multiple submitters COASY-Related Disorders
  • p.Asp201Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Cys357fs Single submitter neurodegeneration with brain iron accumulation
  • p.Gln132Ter Single submitter
  • p.Gln316Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gln527Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly182fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ile469fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Lys185fs Single submitter
  • p.Phe62fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Pro128fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr245fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr141Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr292Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gln59Ter No assertion criteria neurodegeneration with brain iron accumulation 6

Pathogenic/Likely pathogenic 3

  • c.1486-3C>G Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Arg377Ter Multiple submitters pontocerebellar hypoplasia, type 12
  • p.Ser517fs Multiple submitters neurodegeneration with brain iron accumulation

Likely pathogenic 11

  • c.1388-2A>G Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Ala214Val Multiple submitters COASY-Related Disorders ⚠
  • c.1303-2A>G Single submitter
  • c.1387+1G>A Single submitter pontocerebellar hypoplasia, type 12
  • p.Ala30_Arg31insTer Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg377Leu Single submitter isolated cerebellar hypoplasia/agenesis ⚠
  • p.Gln54fs Single submitter
  • p.Glu164fs Single submitter neurodegeneration with brain iron accumulation
  • p.Gly432fs Single submitter Autosomal recessive COASY-related disorders
  • p.Tyr38fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val196fs Single submitter pontocerebellar hypoplasia, type 12

Conflicting classifications of pathogenicity 13

  • c.1237+1G>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.701-2A>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.-1C>T Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala19fs Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg339Ter Single submitter pontocerebellar hypoplasia, type 12
  • p.Arg453Ter Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ile374Val Single submitter neurodegeneration with brain iron accumulation 6 ⚠
  • p.Ile469Ter Single submitter pontocerebellar hypoplasia, type 12
  • p.Lys371Arg Single submitter COASY-Related Disorders ⚠
  • p.Pro260Ser Single submitter neurodegeneration with brain iron accumulation 6 ⚠
  • p.Pro268Ser Single submitter neurodegeneration with brain iron accumulation 6 ⚠
  • p.Tyr191= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr72Cys Single submitter neurodegeneration with brain iron accumulation 6 ⚠

Benign 11

  • c.1302+75C>T Multiple submitters
  • c.1303-86C>G Multiple submitters
  • c.1486-5C>G Multiple submitters neurodegeneration with brain iron accumulation 6
  • c.700+230G>T Multiple submitters
  • c.701-160A>G Multiple submitters
  • c.915+42C>T Multiple submitters
  • p.His529= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Ile556Val Multiple submitters neurodegeneration with brain iron accumulation 6 ⚠
  • p.Ser55Tyr Multiple submitters pontocerebellar hypoplasia, type 12
  • p.Thr324= Multiple submitters pontocerebellar hypoplasia, type 12
  • c.1485+19dup Single submitter neurodegeneration with brain iron accumulation 6

Benign/Likely benign 3

  • p.Gln52His Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Thr27= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Thr69= Multiple submitters neurodegeneration with brain iron accumulation 6

Likely benign 135

  • c.1302+19del Multiple submitters neurodegeneration with brain iron accumulation 6
  • c.1302+7A>G Multiple submitters neurodegeneration with brain iron accumulation 6
  • c.1303-22T>C Multiple submitters
  • c.1388-8C>T Multiple submitters neurodegeneration with brain iron accumulation 6
  • c.916-4C>G Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Ala148= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Ala383= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Ala477= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Pro275= Multiple submitters neurodegeneration with brain iron accumulation 6
  • p.Thr173Lys Multiple submitters neurodegeneration with brain iron accumulation 6 ⚠
  • p.Val248= Multiple submitters neurodegeneration with brain iron accumulation 6
  • c.1047+13C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1047+15C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1047+6C>T Single submitter
  • c.1048-11C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1048-17C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1048-6C>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1048-8A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1237+19T>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.1237+7A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1238-13C>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1238-16T>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.1302+8A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1303-14G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1303-16_1303-15del Single submitter neurodegeneration with brain iron accumulation 6
  • c.1303-16C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1303-4C>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1303-8C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1387+11G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1387+17A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1388-7C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+16C>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+16C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+17C>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+18C>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+19C>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+19C>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+7C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1485+8G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1486-12G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1486-12G>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.1486-13C>T Single submitter
  • c.1486-6G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.1633-11C>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.1633-18A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.1633-20A>T Single submitter neurodegeneration with brain iron accumulation 6
  • c.700+11G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.700+183T>A Single submitter
  • c.700+19G>A Single submitter neurodegeneration with brain iron accumulation 6
  • c.700+20G>C Single submitter
  • c.700+7A>C Single submitter neurodegeneration with brain iron accumulation 6
  • c.700+7A>G Single submitter neurodegeneration with brain iron accumulation 6
  • c.700+8A>G Single submitter
  • c.700+96T>C Single submitter
  • c.701-18_701-16del Single submitter neurodegeneration with brain iron accumulation 6
  • c.-116C>T Single submitter
  • c.-200A>G Single submitter
  • c.-206G>A Single submitter
  • c.-235C>G Single submitter
  • c.-395G>C Single submitter
  • c.-439C>G Single submitter
  • p.Ala137= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala29= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala471= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala509= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala510= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala548= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg146= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg21= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg31= Single submitter
  • p.Arg5= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Arg503= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Asp117= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gln131= Single submitter
  • p.Gln132= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gln54= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Glu220= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Glu253= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Glu327= Single submitter
  • p.Glu63= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly190= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly194= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly274= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly295= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly380= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Gly392= Single submitter
  • p.Gly400= Single submitter
  • p.Gly432= Single submitter neurodegeneration with brain iron accumulation 6
  • p.His109= Single submitter neurodegeneration with brain iron accumulation 6
  • p.His70= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ile366= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ile448= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ile500= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu152= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu18= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu240= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu255= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu269= Single submitter
  • p.Leu307= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu32= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu358= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu37= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu391= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu41= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu426= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu440= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu551= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu563= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Leu81= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Pro128= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Pro179= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Pro268= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Pro398= Single submitter
  • p.Pro57= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ser139= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ser149= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ser372= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr102= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr116= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr199= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr291= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Thr356= Single submitter
  • p.Tyr192= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr244= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr349Cys Single submitter neurodegeneration with brain iron accumulation 6
  • p.Tyr38= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val134= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val161= Single submitter
  • p.Val188= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val287= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val430= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val460= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val466= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Val501= Single submitter neurodegeneration with brain iron accumulation 6
  • p.Ala395= No assertion criteria COASY-related disorder

Uncertain significance 194