SLTM — 109 ClinVar variants
All ClinVar germline SLTM variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 106 flagged for review →
1 Likely pathogenic · 108 Uncertain significance
Full SLTM gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 106
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.
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SLTM p.Pro867His
Likely pathogenic
No assertion criteria
Jeune syndrome
Predictors lean, ClinVar uncertain 84
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- SLTM p.Ala287Ser Uncertain significance Single submitter
- SLTM p.Ala301Glu Uncertain significance Single submitter
- SLTM p.Ala328Thr Uncertain significance Single submitter
- SLTM p.Ala443Gly Uncertain significance Single submitter
- SLTM p.Ala497Val Uncertain significance Single submitter
- SLTM p.Ala532Val Uncertain significance Single submitter
- SLTM p.Ala916Val Uncertain significance Single submitter
- SLTM p.Ala924Thr Uncertain significance Single submitter
- SLTM p.Arg621His Uncertain significance Single submitter
- SLTM p.Arg666Leu Uncertain significance Single submitter
- SLTM p.Arg736Gln Uncertain significance Single submitter
- SLTM p.Arg774Gln Uncertain significance Single submitter
- SLTM p.Arg793Gln Uncertain significance Single submitter
- SLTM p.Arg795His Uncertain significance Single submitter
- SLTM p.Arg806Gln Uncertain significance Single submitter
- SLTM p.Arg853Lys Uncertain significance Single submitter
- SLTM p.Arg894Trp Uncertain significance Single submitter
- SLTM p.Arg903Gln Uncertain significance Single submitter
- SLTM p.Arg983Gln Uncertain significance Single submitter
- SLTM p.Asn300Thr Uncertain significance Single submitter
- SLTM p.Asn487Lys Uncertain significance Single submitter
- SLTM p.Asn65Asp Uncertain significance Single submitter
- SLTM p.Asn769Ser Uncertain significance Single submitter
- SLTM p.Asn769Tyr Uncertain significance Single submitter
- SLTM p.Asn876Ser Uncertain significance Single submitter
- SLTM p.Asp596Asn Uncertain significance Single submitter
- SLTM p.Asp813Gly Uncertain significance Single submitter
- SLTM p.Asp892Glu Uncertain significance Single submitter
- SLTM p.Cys441Ser Uncertain significance Single submitter
- SLTM p.Gln117Glu Uncertain significance Single submitter
- SLTM p.Glu122Ala Uncertain significance Single submitter
- SLTM p.Glu141Val Uncertain significance Single submitter
- SLTM p.Glu156Gln Uncertain significance Single submitter
- SLTM p.Glu227Lys Uncertain significance Single submitter
- SLTM p.Glu318Lys Uncertain significance Single submitter
- SLTM p.Glu538Val Uncertain significance Single submitter
- SLTM p.Glu665Ala Uncertain significance Single submitter
- SLTM p.Glu775Gln Uncertain significance Single submitter
- SLTM p.Glu840Gly Uncertain significance Single submitter
- SLTM p.Glu849Gln Uncertain significance Single submitter
- SLTM p.Glu91Lys Uncertain significance Single submitter
- SLTM p.Glu955Gln Uncertain significance Single submitter
- SLTM p.Gly130Asp Uncertain significance Single submitter
- SLTM p.Gly216Glu Uncertain significance Single submitter
- SLTM p.Gly314Val Uncertain significance Single submitter
- SLTM p.His152Tyr Uncertain significance Single submitter
- SLTM p.His757Arg Uncertain significance Single submitter
- SLTM p.His87Asn Uncertain significance Single submitter
- SLTM p.Ile104Phe Uncertain significance Single submitter
- SLTM p.Ile160Val Uncertain significance Single submitter
- SLTM p.Ile198Lys Uncertain significance Single submitter
- SLTM p.Ile286Thr Uncertain significance Single submitter
- SLTM p.Ile56Thr Uncertain significance Single submitter
- SLTM p.Ile669Met Uncertain significance Single submitter
- SLTM p.Ile994Leu Uncertain significance Single submitter
- SLTM p.Leu338Ser Uncertain significance Single submitter
- SLTM p.Leu747Ser Uncertain significance Single submitter
- SLTM p.Met432Val Uncertain significance Single submitter
- SLTM p.Met629Val Uncertain significance Single submitter
- SLTM p.Met889Thr Uncertain significance Single submitter
- SLTM p.Phe129Ser Uncertain significance Single submitter
- SLTM p.Pro211Leu Uncertain significance Single submitter
- SLTM p.Pro290Leu Uncertain significance Single submitter
- SLTM p.Pro880Thr Uncertain significance Single submitter
- SLTM p.Pro917Ala Uncertain significance Single submitter
- SLTM p.Pro964Ser Uncertain significance Single submitter
- SLTM p.Ser324Gly Uncertain significance Single submitter
- SLTM p.Ser343Leu Uncertain significance Single submitter
- SLTM p.Ser389Asn Uncertain significance Single submitter
- SLTM p.Ser489Thr Uncertain significance Single submitter
- SLTM p.Ser498Ala Uncertain significance Single submitter
- SLTM p.Ser539Leu Uncertain significance Single submitter
- SLTM p.Ser543Ile Uncertain significance Single submitter
- SLTM p.Ser977Thr Uncertain significance Single submitter
- SLTM p.Thr182Ala Uncertain significance Single submitter
- SLTM p.Thr182Ile Uncertain significance Single submitter
- SLTM p.Thr234Ser Uncertain significance Single submitter
- SLTM p.Thr395Ile Uncertain significance Single submitter
- SLTM p.Thr536Ile Uncertain significance Single submitter
- SLTM p.Thr865Pro Uncertain significance Single submitter
- SLTM p.Tyr947His Uncertain significance Single submitter
- SLTM p.Val137Met Uncertain significance Single submitter
- SLTM p.Val235Leu Uncertain significance Single submitter
- SLTM p.Val388Ile Uncertain significance Single submitter
Predictors split 21
The independent predictors disagree with each other — read with care.
- SLTM p.Ala347Asp Uncertain significance Single submitter
- SLTM p.Arg647His Uncertain significance Single submitter
- SLTM p.Arg659Cys Uncertain significance Single submitter
- SLTM p.Arg659His Uncertain significance Single submitter
- SLTM p.Arg664Ser Uncertain significance Single submitter
- SLTM p.Arg683Cys Uncertain significance Single submitter
- SLTM p.Arg793Trp Uncertain significance Single submitter
- SLTM p.Arg844Gln Uncertain significance Single submitter
- SLTM p.Arg847Gln Uncertain significance Single submitter
- SLTM p.Arg956Cys Uncertain significance Single submitter
- SLTM p.Asp860His Uncertain significance Single submitter
- SLTM p.Glu323Gly Uncertain significance Single submitter
- SLTM p.Glu653Lys Uncertain significance Single submitter
- SLTM p.Glu707Asp Uncertain significance Single submitter
- SLTM p.Glu708Ala Uncertain significance Single submitter
- SLTM p.Gly349Asp Uncertain significance Single submitter
- SLTM p.Gly928Arg Uncertain significance Single submitter
- SLTM p.Leu674Arg Uncertain significance Single submitter
- SLTM p.Leu709Val Uncertain significance Single submitter
- SLTM p.Lys81Thr Uncertain significance Single submitter
- SLTM p.Ser929Arg Uncertain significance Single submitter
All SLTM variants
Likely pathogenic 1
- p.Pro867His No assertion criteria Jeune syndrome ⚠
Uncertain significance 108
- p.Ala287Ser Single submitter ⚠
- p.Ala301Glu Single submitter ⚠
- p.Ala328Thr Single submitter ⚠
- p.Ala347Asp Single submitter ⚠
- p.Ala443Gly Single submitter ⚠
- p.Ala497Val Single submitter ⚠
- p.Ala532Val Single submitter ⚠
- p.Ala916Val Single submitter ⚠
- p.Ala924Thr Single submitter ⚠
- p.Arg621His Single submitter ⚠
- p.Arg647His Single submitter ⚠
- p.Arg659Cys Single submitter ⚠
- p.Arg659His Single submitter ⚠
- p.Arg664Ser Single submitter ⚠
- p.Arg666Leu Single submitter ⚠
- p.Arg683Cys Single submitter ⚠
- p.Arg736Gln Single submitter ⚠
- p.Arg774Gln Single submitter ⚠
- p.Arg774Ter Single submitter
- p.Arg793Gln Single submitter ⚠
- p.Arg793Trp Single submitter ⚠
- p.Arg795His Single submitter ⚠
- p.Arg806Gln Single submitter ⚠
- p.Arg844Gln Single submitter ⚠
- p.Arg847Gln Single submitter ⚠
- p.Arg853Lys Single submitter ⚠
- p.Arg894Trp Single submitter ⚠
- p.Arg903Gln Single submitter ⚠
- p.Arg940Ter Single submitter
- p.Arg956Cys Single submitter ⚠
- p.Arg983Gln Single submitter ⚠
- p.Asn300Thr Single submitter ⚠
- p.Asn487Lys Single submitter ⚠
- p.Asn65Asp Single submitter ⚠
- p.Asn769Ser Single submitter ⚠
- p.Asn769Tyr Single submitter ⚠
- p.Asn876Ser Single submitter ⚠
- p.Asp596Asn Single submitter ⚠
- p.Asp813Gly Single submitter ⚠
- p.Asp860His Single submitter ⚠
- p.Asp892Glu Single submitter ⚠
- p.Cys441Ser Single submitter ⚠
- p.Gln117Glu Single submitter ⚠
- p.Glu122Ala Single submitter ⚠
- p.Glu141Val Single submitter ⚠
- p.Glu156Gln Single submitter ⚠
- p.Glu227Lys Single submitter ⚠
- p.Glu318Lys Single submitter ⚠
- p.Glu323Gly Single submitter ⚠
- p.Glu538Val Single submitter ⚠
- p.Glu653Lys Single submitter ⚠
- p.Glu665Ala Single submitter ⚠
- p.Glu707Asp Single submitter ⚠
- p.Glu708Ala Single submitter ⚠
- p.Glu775Gln Single submitter ⚠
- p.Glu840Gly Single submitter ⚠
- p.Glu849Gln Single submitter ⚠
- p.Glu91Lys Single submitter ⚠
- p.Glu955Gln Single submitter ⚠
- p.Gly130Asp Single submitter ⚠
- p.Gly216Glu Single submitter ⚠
- p.Gly314Val Single submitter ⚠
- p.Gly349Asp Single submitter ⚠
- p.Gly928Arg Single submitter ⚠
- p.His152Tyr Single submitter ⚠
- p.His757Arg Single submitter ⚠
- p.His87Asn Single submitter ⚠
- p.Ile104Phe Single submitter ⚠
- p.Ile160Val Single submitter ⚠
- p.Ile198Lys Single submitter ⚠
- p.Ile286Thr Single submitter ⚠
- p.Ile56Thr Single submitter ⚠
- p.Ile669Met Single submitter ⚠
- p.Ile994Leu Single submitter ⚠
- p.Leu338Ser Single submitter ⚠
- p.Leu674Arg Single submitter ⚠
- p.Leu709Val Single submitter ⚠
- p.Leu747Ser Single submitter ⚠
- p.Lys326Glu Single submitter
- p.Lys81Thr Single submitter ⚠
- p.Met432Val Single submitter ⚠
- p.Met629Val Single submitter ⚠
- p.Met889Thr Single submitter ⚠
- p.Phe129Ser Single submitter ⚠
- p.Pro211Leu Single submitter ⚠
- p.Pro290Leu Single submitter ⚠
- p.Pro880Thr Single submitter ⚠
- p.Pro917Ala Single submitter ⚠
- p.Pro964Ser Single submitter ⚠
- p.Ser324Gly Single submitter ⚠
- p.Ser343Leu Single submitter ⚠
- p.Ser389Asn Single submitter ⚠
- p.Ser489Thr Single submitter ⚠
- p.Ser498Ala Single submitter ⚠
- p.Ser539Leu Single submitter ⚠
- p.Ser543Ile Single submitter ⚠
- p.Ser929Arg Single submitter ⚠
- p.Ser977Thr Single submitter ⚠
- p.Thr182Ala Single submitter ⚠
- p.Thr182Ile Single submitter ⚠
- p.Thr234Ser Single submitter ⚠
- p.Thr395Ile Single submitter ⚠
- p.Thr536Ile Single submitter ⚠
- p.Thr865Pro Single submitter ⚠
- p.Tyr947His Single submitter ⚠
- p.Val137Met Single submitter ⚠
- p.Val235Leu Single submitter ⚠
- p.Val388Ile Single submitter ⚠