SC5D — 226 ClinVar variants
All ClinVar germline SC5D variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 52 flagged for review →
3 Pathogenic · 2 Likely pathogenic · 7 Conflicting · 23 Benign · 3 Benign/Likely benign · 45 Likely benign · 143 Uncertain significance
Full SC5D gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 52
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.
-
SC5D p.Arg149His
Conflicting
Single submitter
Inborn genetic diseases
-
SC5D p.Asp108Gly
Conflicting
Single submitter
Inborn genetic diseases
Predictors lean, ClinVar uncertain 38
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
-
SC5D p.Asn292Ser
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SC5D p.Asp59Asn
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SC5D p.Met234Val
Uncertain significance
Multiple submitters
Inborn genetic diseases
- SC5D p.Tyr55Cys Uncertain significance Multiple submitters
-
SC5D p.Val57Leu
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SC5D p.Ala61Thr
Uncertain significance
Single submitter
lathosterolosis
-
SC5D p.Arg75Gln
Uncertain significance
Single submitter
lathosterolosis
- SC5D p.Asp237Glu Uncertain significance Single submitter
- SC5D p.Asp2Gly Uncertain significance Single submitter
-
SC5D p.Gln217His
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Gly140Ser Uncertain significance Single submitter
- SC5D p.Gly251Asp Uncertain significance Single submitter
- SC5D p.His151Arg Uncertain significance Single submitter
-
SC5D p.His229Arg
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Ile124Lys
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Ile124Val
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Ile182Met Uncertain significance Single submitter
-
SC5D p.Ile208Met
Uncertain significance
Single submitter
lathosterolosis
-
SC5D p.Ile36Phe
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Leu189Ile Uncertain significance Single submitter
-
SC5D p.Leu189Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Leu200Ser Uncertain significance Single submitter
-
SC5D p.Leu219Ser
Uncertain significance
Single submitter
lathosterolosis
-
SC5D p.Leu5Val
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Lys78Asn Uncertain significance Single submitter
-
SC5D p.Met272Val
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Pro160Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Pro179Ser
Uncertain significance
Single submitter
lathosterolosis
-
SC5D p.Pro221Leu
Uncertain significance
Single submitter
lathosterolosis
- SC5D p.Pro221Ser Uncertain significance Single submitter
-
SC5D p.Ser196Arg
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Thr161Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Thr205Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Thr51Ala
Uncertain significance
Single submitter
lathosterolosis
-
SC5D p.Tyr135Cys
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Tyr183Cys Uncertain significance Single submitter
-
SC5D p.Val17Met
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Ala8Thr Uncertain significance No assertion criteria
Predictors split 12
The independent predictors disagree with each other — read with care.
- SC5D p.Arg277Cys Uncertain significance Multiple submitters
- SC5D p.Arg6Cys Benign/Likely benign Multiple submitters
-
SC5D p.Lys148Glu
Uncertain significance
Multiple submitters
lathosterolosis
-
SC5D p.Arg214Cys
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Arg6Pro Uncertain significance Single submitter
-
SC5D p.Gly101Asp
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Gly211Arg Uncertain significance Single submitter
-
SC5D p.Gly211Asp
Likely pathogenic
Single submitter
lathosterolosis
-
SC5D p.Gly211Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
SC5D p.Met132Ile
Uncertain significance
Single submitter
Inborn genetic diseases
- SC5D p.Ser33Asn Uncertain significance Single submitter
-
SC5D p.Asp210Glu
Pathogenic
No assertion criteria
lathosterolosis
All SC5D variants
Pathogenic 3
- p.Asp210Glu No assertion criteria lathosterolosis ⚠
- p.Pro160Arg No assertion criteria lathosterolosis
- p.Tyr46Ser No assertion criteria lathosterolosis
Likely pathogenic 2
- p.Arg29Gln Single submitter lathosterolosis
- p.Gly211Asp Single submitter lathosterolosis ⚠
Conflicting classifications of pathogenicity 7
- c.344-15C>T Single submitter lathosterolosis
- c.444+11T>C Single submitter lathosterolosis
- p.Arg149His Single submitter Inborn genetic diseases ⚠
- p.Arg75Ter Single submitter lathosterolosis
- p.Asp108Gly Single submitter Inborn genetic diseases ⚠
- p.Gly251= Single submitter lathosterolosis
- p.Leu90fs Single submitter Inborn genetic diseases
Benign 23
- c.445-19G>T Multiple submitters
- c.445-280G>A Multiple submitters
- c.*1328C>T Multiple submitters lathosterolosis
- c.*81A>C Multiple submitters lathosterolosis
- p.Ile182Val Multiple submitters lathosterolosis
- c.210+368_210+370del Single submitter
- c.211-14A>G Single submitter
- c.343+17A>C Single submitter
- c.343+190_343+191del Single submitter
- c.-10-2064del Single submitter
- c.*1626A>T Single submitter lathosterolosis
- c.*1851C>G Single submitter lathosterolosis
- c.*2265C>G Single submitter lathosterolosis
- c.*2662G>A Single submitter lathosterolosis
- c.*2986C>T Single submitter lathosterolosis
- c.*3070C>T Single submitter lathosterolosis
- c.*3196C>T Single submitter lathosterolosis
- c.*3345C>T Single submitter lathosterolosis
- c.*3472A>G Single submitter lathosterolosis
- c.*3627A>G Single submitter lathosterolosis
- c.*4924T>C Single submitter lathosterolosis
- c.*5224A>G Single submitter lathosterolosis
- c.*5742T>C Single submitter lathosterolosis
Benign/Likely benign 3
- c.210+19T>A Multiple submitters
- c.211-8A>T Multiple submitters lathosterolosis
- p.Arg6Cys Multiple submitters ⚠
Likely benign 45
- c.343+149T>C Multiple submitters
- c.343+245T>C Multiple submitters
- c.343+3A>G Multiple submitters lathosterolosis
- p.Arg214His Multiple submitters
- p.Arg277His Multiple submitters
- p.Tyr54= Multiple submitters
- c.343+15C>A Single submitter
- c.343+15C>T Single submitter
- c.343+16G>A Single submitter
- c.343+9_343+12del Single submitter
- c.344-13T>A Single submitter
- c.344-14G>A Single submitter
- c.444+9A>T Single submitter
- c.445-128A>G Single submitter
- c.445-7C>T Single submitter
- c.*1195A>G Single submitter lathosterolosis
- c.*1468C>G Single submitter lathosterolosis
- c.*2183C>G Single submitter lathosterolosis
- c.*263G>A Single submitter lathosterolosis
- c.*3699G>A Single submitter lathosterolosis
- c.*4342C>T Single submitter lathosterolosis
- c.*4912C>T Single submitter lathosterolosis
- p.Asn202= Single submitter
- p.Asp210= Single submitter
- p.Asp248= Single submitter
- p.Gln67= Single submitter
- p.Glu111= Single submitter
- p.Ile99Val Single submitter Inborn genetic diseases
- p.Leu109= Single submitter
- p.Leu127= Single submitter
- p.Leu266= Single submitter
- p.Phe291= Single submitter
- p.Phe295= Single submitter
- p.Phe58= Single submitter
- p.Pro153= Single submitter
- p.Pro19= Single submitter
- p.Pro221= Single submitter
- p.Thr21= Single submitter
- p.Tyr102= Single submitter
- p.Tyr16= Single submitter
- p.Tyr43= Single submitter
- p.Val120= Single submitter
- p.Val121Ile Single submitter Inborn genetic diseases
- p.Val193= Single submitter
- p.Val215= Single submitter
Uncertain significance 143
- p.Arg277Cys Multiple submitters ⚠
- p.Asn292Ser Multiple submitters Inborn genetic diseases ⚠
- p.Asp59Asn Multiple submitters Inborn genetic diseases ⚠
- p.Lys148Glu Multiple submitters lathosterolosis ⚠
- p.Met234Val Multiple submitters Inborn genetic diseases ⚠
- p.Tyr55Cys Multiple submitters ⚠
- p.Val57Leu Multiple submitters Inborn genetic diseases ⚠
- c.211-2A>G Single submitter
- c.344-8T>C Single submitter lathosterolosis
- c.*1012T>C Single submitter lathosterolosis
- c.*1196T>A Single submitter lathosterolosis
- c.*1223A>T Single submitter lathosterolosis
- c.*1305A>C Single submitter lathosterolosis
- c.*160G>A Single submitter lathosterolosis
- c.*1681T>C Single submitter lathosterolosis
- c.*1685C>T Single submitter lathosterolosis
- c.*1711T>C Single submitter lathosterolosis
- c.*1720C>T Single submitter lathosterolosis
- c.*1818A>G Single submitter lathosterolosis
- c.*1860A>G Single submitter lathosterolosis
- c.*1876G>T Single submitter lathosterolosis
- c.*2212C>A Single submitter lathosterolosis
- c.*2277A>G Single submitter lathosterolosis
- c.*229G>A Single submitter lathosterolosis
- c.*2363G>A Single submitter lathosterolosis
- c.*2430C>T Single submitter lathosterolosis
- c.*2477C>G Single submitter lathosterolosis
- c.*2520A>G Single submitter lathosterolosis
- c.*2648A>T Single submitter lathosterolosis
- c.*2653A>T Single submitter lathosterolosis
- c.*2802A>T Single submitter lathosterolosis
- c.*2819T>C Single submitter lathosterolosis
- c.*2864G>T Single submitter lathosterolosis
- c.*2873A>G Single submitter lathosterolosis
- c.*2879G>T Single submitter lathosterolosis
- c.*2943C>T Single submitter lathosterolosis
- c.*3003T>A Single submitter lathosterolosis
- c.*3006C>T Single submitter lathosterolosis
- c.*3065C>T Single submitter lathosterolosis
- c.*3095G>A Single submitter lathosterolosis
- c.*3106G>A Single submitter lathosterolosis
- c.*3110G>A Single submitter lathosterolosis
- c.*3116T>C Single submitter lathosterolosis
- c.*313A>T Single submitter lathosterolosis
- c.*3175C>T Single submitter lathosterolosis
- c.*3184A>G Single submitter lathosterolosis
- c.*3225G>A Single submitter lathosterolosis
- c.*3246C>T Single submitter lathosterolosis
- c.*3312A>T Single submitter lathosterolosis
- c.*3346G>A Single submitter lathosterolosis
- c.*3599C>T Single submitter lathosterolosis
- c.*3665C>T Single submitter lathosterolosis
- c.*367A>T Single submitter lathosterolosis
- c.*3937C>T Single submitter lathosterolosis
- c.*3955C>T Single submitter lathosterolosis
- c.*4087T>C Single submitter lathosterolosis
- c.*4400T>C Single submitter lathosterolosis
- c.*4432T>A Single submitter lathosterolosis
- c.*4454G>A Single submitter lathosterolosis
- c.*4469G>A Single submitter lathosterolosis
- c.*4576T>A Single submitter lathosterolosis
- c.*4597A>T Single submitter lathosterolosis
- c.*4752A>T Single submitter lathosterolosis
- c.*4756A>G Single submitter lathosterolosis
- c.*5018T>C Single submitter lathosterolosis
- c.*5061A>G Single submitter lathosterolosis
- c.*512G>A Single submitter lathosterolosis
- c.*5132C>T Single submitter lathosterolosis
- c.*5200C>T Single submitter lathosterolosis
- c.*5210C>T Single submitter lathosterolosis
- c.*5255A>T Single submitter lathosterolosis
- c.*5260A>G Single submitter lathosterolosis
- c.*5282C>T Single submitter lathosterolosis
- c.*5324A>C Single submitter lathosterolosis
- c.*5357T>C Single submitter lathosterolosis
- c.*5440A>G Single submitter lathosterolosis
- c.*5534C>G Single submitter lathosterolosis
- c.*5630C>T Single submitter lathosterolosis
- c.*5640T>C Single submitter lathosterolosis
- c.*5717C>G Single submitter lathosterolosis
- c.*582A>G Single submitter lathosterolosis
- c.*5834A>G Single submitter lathosterolosis
- c.*584C>T Single submitter lathosterolosis
- c.*5855G>A Single submitter lathosterolosis
- c.*598T>C Single submitter lathosterolosis
- c.*622C>T Single submitter lathosterolosis
- c.*628C>T Single submitter lathosterolosis
- c.*981C>T Single submitter lathosterolosis
- c.*99C>T Single submitter lathosterolosis
- p.Ala61Thr Single submitter lathosterolosis ⚠
- p.Arg149= Single submitter lathosterolosis
- p.Arg214Cys Single submitter Inborn genetic diseases ⚠
- p.Arg29Ter Single submitter lathosterolosis
- p.Arg6Pro Single submitter ⚠
- p.Arg75Gln Single submitter lathosterolosis ⚠
- p.Asp237Glu Single submitter ⚠
- p.Asp2Gly Single submitter ⚠
- p.Gln217His Single submitter Inborn genetic diseases ⚠
- p.Glu274fs Single submitter
- p.Gly101Asp Single submitter Inborn genetic diseases ⚠
- p.Gly140Ser Single submitter ⚠
- p.Gly211Arg Single submitter ⚠
- p.Gly211Ser Single submitter Inborn genetic diseases ⚠
- p.Gly251Asp Single submitter ⚠
- p.Gly264Ter Single submitter
- p.His151Arg Single submitter ⚠
- p.His229Arg Single submitter Inborn genetic diseases ⚠
- p.Ile124Lys Single submitter Inborn genetic diseases ⚠
- p.Ile124Val Single submitter Inborn genetic diseases ⚠
- p.Ile182Met Single submitter ⚠
- p.Ile203Thr Single submitter lathosterolosis
- p.Ile208Met Single submitter lathosterolosis ⚠
- p.Ile36Phe Single submitter Inborn genetic diseases ⚠
- p.Leu189fs Single submitter lathosterolosis
- p.Leu189Ile Single submitter ⚠
- p.Leu189Ser Single submitter Inborn genetic diseases ⚠
- p.Leu200Ser Single submitter ⚠
- p.Leu219Ser Single submitter lathosterolosis ⚠
- p.Leu5Val Single submitter Inborn genetic diseases ⚠
- p.Lys78Asn Single submitter ⚠
- p.Met132Ile Single submitter Inborn genetic diseases ⚠
- p.Met272Val Single submitter Inborn genetic diseases ⚠
- p.Met63Ile Single submitter
- p.Pro160Ser Single submitter Inborn genetic diseases ⚠
- p.Pro179Ser Single submitter lathosterolosis ⚠
- p.Pro221Leu Single submitter lathosterolosis ⚠
- p.Pro221Ser Single submitter ⚠
- p.Pro23fs Single submitter
- p.Pro265Leu Single submitter
- p.Ser196Arg Single submitter Inborn genetic diseases ⚠
- p.Ser281= Single submitter lathosterolosis
- p.Ser33Asn Single submitter ⚠
- p.Thr161Ile Single submitter Inborn genetic diseases ⚠
- p.Thr205Ile Single submitter Inborn genetic diseases ⚠
- p.Thr51Ala Single submitter lathosterolosis ⚠
- p.Trp136Ter Single submitter
- p.Tyr135Cys Single submitter Inborn genetic diseases ⚠
- p.Tyr183Cys Single submitter ⚠
- p.Val17fs Single submitter
- p.Val17Met Single submitter Inborn genetic diseases ⚠
- c.343+1G>T No assertion criteria SC5D-related disorder
- p.Ala8Thr No assertion criteria ⚠
- p.Gln217Ter No assertion criteria