CTH — 100 ClinVar variants
All ClinVar germline CTH variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 56 flagged for review →
2 Pathogenic · 1 Pathogenic/Likely pathogenic · 1 Likely pathogenic · 3 Conflicting · 4 Benign · 8 Likely benign · 81 Uncertain significance
Full CTH gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 56
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 1
ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.
-
CTH p.Thr67Ile
Conflicting
Single submitter
cystathioninuria
Predictors lean, ClinVar uncertain 31
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
-
CTH p.Asp181Asn
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
CTH p.Asp5Glu
Uncertain significance
Multiple submitters
cystathioninuria
-
CTH p.Cys229Arg
Uncertain significance
Multiple submitters
cystathioninuria
-
CTH p.Glu345Lys
Uncertain significance
Multiple submitters
cystathioninuria
-
CTH p.Thr158Ile
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
CTH p.Ala103Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ala146Pro
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ala6Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Arg237Leu
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Arg265Leu
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Arg62Pro
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Asn234Asp
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Asp136Asn
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Asp385Gly
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Cys252Phe
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Glu127Asp
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Glu157Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gly26Asp
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gly90Ala
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ile107Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ile250Val
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ile290Met
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ile97Val
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Leu332Pro
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Lys165Asn
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Pro13Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro249Arg
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro399Ala
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ser370Asn
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Thr98Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Val25Glu
Uncertain significance
Single submitter
Inborn genetic diseases
Predictors split 24
The independent predictors disagree with each other — read with care.
-
CTH p.Ser403Ile
Benign
Multiple submitters
cystathioninuria
-
CTH p.Ala245Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ala51Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Asp371Gly
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gln106Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gln278His
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gln27Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Glu144Gln
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Glu281Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Glu301Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gly104Glu
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gly57Asp
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Ile175Asn
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Leu254Phe
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Leu43Pro
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Met207Thr
Uncertain significance
Single submitter
cystathioninuria
-
CTH p.Met207Val
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro149Leu
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro284Thr
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro295Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Pro39Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Thr321Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Val225Met
Uncertain significance
Single submitter
Inborn genetic diseases
-
CTH p.Gln240Glu
Pathogenic
No assertion criteria
cystathioninuria
All CTH variants
Pathogenic 2
- p.Gln240Glu No assertion criteria cystathioninuria ⚠
- p.Leu262fs No assertion criteria cystathioninuria
Pathogenic/Likely pathogenic 1
- p.Thr355fs Multiple submitters cystathioninuria
Likely pathogenic 1
- p.Arg265Ter Single submitter cystathioninuria
Conflicting classifications of pathogenicity 3
- c.346+7G>A Single submitter cystathioninuria
- p.Lys288= Single submitter cystathioninuria
- p.Thr67Ile Single submitter cystathioninuria ⚠
Benign 4
- c.*523A>T Multiple submitters cystathioninuria
- c.*544G>A Multiple submitters cystathioninuria
- c.*592C>T Multiple submitters cystathioninuria
- p.Ser403Ile Multiple submitters cystathioninuria ⚠
Likely benign 8
- c.-140A>T Multiple submitters cystathioninuria
- p.Leu43= Multiple submitters cystathioninuria
- c.1191+15TG[16] Single submitter
- c.1191+15TG[17] Single submitter
- c.*389T>C Single submitter cystathioninuria
- p.Gly171Ala Single submitter Inborn genetic diseases
- p.Ile167Thr Single submitter Inborn genetic diseases
- p.Thr46= No assertion criteria CTH-related disorder
Uncertain significance 81
- c.647-15G>C Multiple submitters cystathioninuria
- p.Asp181Asn Multiple submitters Inborn genetic diseases ⚠
- p.Asp5Glu Multiple submitters cystathioninuria ⚠
- p.Cys229Arg Multiple submitters cystathioninuria ⚠
- p.Glu345Lys Multiple submitters cystathioninuria ⚠
- p.Thr158Ile Multiple submitters Inborn genetic diseases ⚠
- c.347-2A>G Single submitter cystathioninuria
- c.589-3C>T Single submitter cystathioninuria
- c.724+10A>G Single submitter cystathioninuria
- c.-151T>C Single submitter cystathioninuria
- c.-3A>G Single submitter cystathioninuria
- c.*217G>T Single submitter cystathioninuria
- c.*260T>C Single submitter cystathioninuria
- c.*334T>A Single submitter cystathioninuria
- c.*336A>G Single submitter cystathioninuria
- c.*370C>T Single submitter cystathioninuria
- c.*371G>A Single submitter cystathioninuria
- c.*411G>C Single submitter cystathioninuria
- c.*513T>A Single submitter cystathioninuria
- c.*522T>A Single submitter cystathioninuria
- c.*527A>T Single submitter cystathioninuria
- c.*545C>T Single submitter cystathioninuria
- c.*546G>A Single submitter cystathioninuria
- c.*587G>A Single submitter cystathioninuria
- c.*588C>T Single submitter cystathioninuria
- c.*630G>A Single submitter cystathioninuria
- c.*631C>T Single submitter cystathioninuria
- c.*632G>A Single submitter cystathioninuria
- c.*681G>A Single submitter cystathioninuria
- c.*693G>T Single submitter cystathioninuria
- c.*98G>A Single submitter cystathioninuria
- p.Ala103Ser Single submitter Inborn genetic diseases ⚠
- p.Ala146Pro Single submitter Inborn genetic diseases ⚠
- p.Ala245Thr Single submitter Inborn genetic diseases ⚠
- p.Ala51Thr Single submitter Inborn genetic diseases ⚠
- p.Ala6Thr Single submitter Inborn genetic diseases ⚠
- p.Arg237Leu Single submitter cystathioninuria ⚠
- p.Arg265Leu Single submitter cystathioninuria ⚠
- p.Arg62Pro Single submitter Inborn genetic diseases ⚠
- p.Asn234Asp Single submitter Inborn genetic diseases ⚠
- p.Asn272= Single submitter cystathioninuria
- p.Asp136Asn Single submitter Inborn genetic diseases ⚠
- p.Asp371Gly Single submitter Inborn genetic diseases ⚠
- p.Asp385Gly Single submitter Inborn genetic diseases ⚠
- p.Cys252Phe Single submitter Inborn genetic diseases ⚠
- p.Gln106Lys Single submitter Inborn genetic diseases ⚠
- p.Gln278His Single submitter Inborn genetic diseases ⚠
- p.Gln27Lys Single submitter Inborn genetic diseases ⚠
- p.Glu127= Single submitter cystathioninuria
- p.Glu127Asp Single submitter Inborn genetic diseases ⚠
- p.Glu144Gln Single submitter cystathioninuria ⚠
- p.Glu157Lys Single submitter Inborn genetic diseases ⚠
- p.Glu281Lys Single submitter Inborn genetic diseases ⚠
- p.Glu301Lys Single submitter Inborn genetic diseases ⚠
- p.Gly104Glu Single submitter Inborn genetic diseases ⚠
- p.Gly26Asp Single submitter Inborn genetic diseases ⚠
- p.Gly57Asp Single submitter Inborn genetic diseases ⚠
- p.Gly90Ala Single submitter Inborn genetic diseases ⚠
- p.Ile107Thr Single submitter Inborn genetic diseases ⚠
- p.Ile175Asn Single submitter Inborn genetic diseases ⚠
- p.Ile250Val Single submitter Inborn genetic diseases ⚠
- p.Ile290Met Single submitter Inborn genetic diseases ⚠
- p.Ile97Val Single submitter Inborn genetic diseases ⚠
- p.Leu254Phe Single submitter Inborn genetic diseases ⚠
- p.Leu332Pro Single submitter cystathioninuria ⚠
- p.Leu43Pro Single submitter Inborn genetic diseases ⚠
- p.Lys165Asn Single submitter cystathioninuria ⚠
- p.Met207Thr Single submitter cystathioninuria ⚠
- p.Met207Val Single submitter Inborn genetic diseases ⚠
- p.Pro13Thr Single submitter Inborn genetic diseases ⚠
- p.Pro149Leu Single submitter Inborn genetic diseases ⚠
- p.Pro249Arg Single submitter Inborn genetic diseases ⚠
- p.Pro284Thr Single submitter Inborn genetic diseases ⚠
- p.Pro295Ser Single submitter Inborn genetic diseases ⚠
- p.Pro399Ala Single submitter Inborn genetic diseases ⚠
- p.Pro39Ser Single submitter Inborn genetic diseases ⚠
- p.Ser370Asn Single submitter Inborn genetic diseases ⚠
- p.Thr321Ile Single submitter Inborn genetic diseases ⚠
- p.Thr98Ile Single submitter Inborn genetic diseases ⚠
- p.Val225Met Single submitter Inborn genetic diseases ⚠
- p.Val25Glu Single submitter Inborn genetic diseases ⚠