CHST6 — 375 ClinVar variants

All ClinVar germline CHST6 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 132 flagged for review →

24 Pathogenic · 4 Pathogenic/Likely pathogenic · 25 Likely pathogenic · 10 Conflicting · 44 Benign · 2 Benign/Likely benign · 43 Likely benign · 223 Uncertain significance

Full CHST6 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 132

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 2

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

Predictors lean, ClinVar uncertain 58

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

Predictors split 72

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

All CHST6 variants

Pathogenic 24

Pathogenic/Likely pathogenic 4

  • p.Arg269fs Multiple submitters macular corneal dystrophy
  • p.Gln58Ter Multiple submitters macular corneal dystrophy
  • p.Glu283Ter Multiple submitters macular corneal dystrophy
  • p.Met1Leu Multiple submitters macular corneal dystrophy

Likely pathogenic 25

  • p.Ala128Thr Multiple submitters macular corneal dystrophy ⚠
  • p.Arg177Cys Single submitter macular corneal dystrophy
  • p.Arg211Gly Single submitter macular corneal dystrophy
  • p.Arg247fs Single submitter macular corneal dystrophy
  • p.Arg97Cys Single submitter macular corneal dystrophy ⚠
  • p.Asp203Glu Single submitter macular corneal dystrophy
  • p.Cys165Ter Single submitter macular corneal dystrophy
  • p.Cys349Trp Single submitter macular corneal dystrophy
  • p.Gln18Ter Single submitter macular corneal dystrophy
  • p.Glu163fs Single submitter macular corneal dystrophy
  • p.Glu274Ter Single submitter macular corneal dystrophy
  • p.Leu276fs Single submitter macular corneal dystrophy
  • p.Lys341fs Single submitter macular corneal dystrophy
  • p.Phe24fs Single submitter macular corneal dystrophy
  • p.Phe55Leu Single submitter macular corneal dystrophy
  • p.Pro186Arg Single submitter macular corneal dystrophy ⚠
  • p.Pro204Gln Single submitter macular corneal dystrophy
  • p.Ser131Ter Single submitter macular corneal dystrophy
  • p.Ser54Tyr Single submitter macular corneal dystrophy
  • p.Ser98fs Single submitter macular corneal dystrophy
  • p.Trp123Ter Single submitter macular corneal dystrophy
  • p.Trp2Ter Single submitter macular corneal dystrophy
  • p.Val176Met Single submitter
  • p.Val233fs Single submitter macular corneal dystrophy
  • p.Glu71Gln No assertion criteria macular corneal dystrophy

Conflicting classifications of pathogenicity 10

Benign 44

  • c.*1375G>A Multiple submitters macular corneal dystrophy
  • c.*1566T>G Multiple submitters macular corneal dystrophy
  • c.*2288T>G Multiple submitters macular corneal dystrophy
  • c.*2327C>T Multiple submitters macular corneal dystrophy
  • c.*377G>A Multiple submitters macular corneal dystrophy
  • p.Ala256= Multiple submitters macular corneal dystrophy
  • p.Ala86= Multiple submitters macular corneal dystrophy
  • p.Arg155= Multiple submitters macular corneal dystrophy
  • p.Arg162Gly Multiple submitters macular corneal dystrophy
  • p.Arg40= Multiple submitters macular corneal dystrophy
  • p.Asn222= Multiple submitters macular corneal dystrophy
  • p.Leu276= Multiple submitters macular corneal dystrophy
  • p.Ser98= Multiple submitters macular corneal dystrophy
  • p.Val43= Multiple submitters macular corneal dystrophy
  • c.-16-289TAAGAAGGTAGGACTCACAT[2] Single submitter
  • c.*1047G>T Single submitter macular corneal dystrophy
  • c.*1058G>A Single submitter macular corneal dystrophy
  • c.*1426C>A Single submitter macular corneal dystrophy
  • c.*1919C>T Single submitter macular corneal dystrophy
  • c.*1967C>T Single submitter macular corneal dystrophy
  • c.*2024C>G Single submitter macular corneal dystrophy
  • c.*242_*243insG Single submitter
  • c.*2833T>G Single submitter macular corneal dystrophy
  • c.*2956G>A Single submitter macular corneal dystrophy
  • c.*3465T>C Single submitter macular corneal dystrophy
  • c.*3621A>G Single submitter macular corneal dystrophy
  • c.*3742C>T Single submitter macular corneal dystrophy
  • c.*3750C>A Single submitter macular corneal dystrophy
  • c.*3819G>C Single submitter macular corneal dystrophy
  • c.*3828A>T Single submitter macular corneal dystrophy
  • c.*3992T>C Single submitter macular corneal dystrophy
  • c.*4086G>A Single submitter macular corneal dystrophy
  • c.*4155C>T Single submitter macular corneal dystrophy
  • c.*4305T>C Single submitter macular corneal dystrophy
  • c.*4366T>C Single submitter macular corneal dystrophy
  • c.*4605C>T Single submitter macular corneal dystrophy
  • c.*5187T>G Single submitter macular corneal dystrophy
  • c.*5286A>T Single submitter macular corneal dystrophy
  • c.*5441C>T Single submitter macular corneal dystrophy
  • c.*5445G>A Single submitter macular corneal dystrophy
  • c.*5465C>T Single submitter macular corneal dystrophy
  • c.*606G>A Single submitter macular corneal dystrophy
  • c.*955C>T Single submitter macular corneal dystrophy
  • c.*991A>G Single submitter macular corneal dystrophy

Benign/Likely benign 2

  • p.Ala336Thr Multiple submitters Inborn genetic diseases
  • p.Thr79= Multiple submitters macular corneal dystrophy

Likely benign 43

  • p.Phe263= Multiple submitters macular corneal dystrophy
  • c.-78T>C Single submitter macular corneal dystrophy
  • c.*1118A>G Single submitter macular corneal dystrophy
  • c.*1377G>A Single submitter macular corneal dystrophy
  • c.*1914A>G Single submitter macular corneal dystrophy
  • c.*2210C>G Single submitter macular corneal dystrophy
  • c.*2417C>T Single submitter macular corneal dystrophy
  • c.*2426T>C Single submitter macular corneal dystrophy
  • c.*2947G>T Single submitter macular corneal dystrophy
  • c.*2955C>T Single submitter macular corneal dystrophy
  • c.*3364C>A Single submitter macular corneal dystrophy
  • c.*3883T>G Single submitter macular corneal dystrophy
  • c.*3917G>A Single submitter macular corneal dystrophy
  • c.*435C>T Single submitter macular corneal dystrophy
  • c.*4487C>T Single submitter macular corneal dystrophy
  • c.*4880G>A Single submitter macular corneal dystrophy
  • c.*5197C>T Single submitter macular corneal dystrophy
  • p.Ala137= Single submitter macular corneal dystrophy
  • p.Ala142= Single submitter macular corneal dystrophy
  • p.Ala154= Single submitter macular corneal dystrophy
  • p.Ala206= Single submitter macular corneal dystrophy
  • p.Ala352= Single submitter macular corneal dystrophy
  • p.Arg243= Single submitter macular corneal dystrophy
  • p.Arg5= Single submitter macular corneal dystrophy
  • p.Asp108= Single submitter macular corneal dystrophy
  • p.Glu212= Single submitter macular corneal dystrophy
  • p.Gly292= Single submitter macular corneal dystrophy
  • p.Gly357= Single submitter macular corneal dystrophy
  • p.His304= Single submitter macular corneal dystrophy
  • p.Ile224= Single submitter macular corneal dystrophy
  • p.Leu15= Single submitter macular corneal dystrophy
  • p.Leu195= Single submitter macular corneal dystrophy
  • p.Leu299= Single submitter macular corneal dystrophy
  • p.Leu44= Single submitter macular corneal dystrophy
  • p.Lys174= Single submitter macular corneal dystrophy
  • p.Phe24= Single submitter macular corneal dystrophy
  • p.Ser157Pro Single submitter Inborn genetic diseases
  • p.Thr389= Single submitter macular corneal dystrophy
  • p.Thr9= Single submitter macular corneal dystrophy
  • p.Val207= Single submitter macular corneal dystrophy
  • p.Val361= Single submitter macular corneal dystrophy
  • p.Ala13= No assertion criteria CHST6-related disorder
  • p.His249= No assertion criteria CHST6-related disorder

Uncertain significance 223