DLG4 — 283 ClinVar variants

All ClinVar germline DLG4 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 122 flagged for review →

56 Pathogenic · 20 Pathogenic/Likely pathogenic · 25 Likely pathogenic · 4 Conflicting · 9 Benign · 1 Benign/Likely benign · 33 Likely benign · 135 Uncertain significance

Full DLG4 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 122

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.

Predictors lean, ClinVar uncertain 53

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

Predictors split 68

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

All DLG4 variants

Pathogenic 56

  • p.Arg313Ter Multiple submitters Inborn genetic diseases
  • p.Arg368Ter Multiple submitters intellectual developmental disorder 62
  • p.Arg399Ter Multiple submitters intellectual developmental disorder 62
  • p.Arg516Ter Multiple submitters Inborn genetic diseases
  • p.Arg586Gln Multiple submitters intellectual developmental disorder 62 ⚠
  • p.Arg617Ter Multiple submitters intellectual developmental disorder 62
  • p.Asn114fs Multiple submitters intellectual developmental disorder 62
  • p.Gln107Ter Multiple submitters intellectual developmental disorder 62
  • p.Gln358Ter Multiple submitters intellectual developmental disorder 62
  • p.Glu160Ter Multiple submitters intellectual developmental disorder 62
  • p.Glu401Ter Multiple submitters intellectual developmental disorder 62
  • p.Glu65Ter Multiple submitters Inborn genetic diseases
  • p.Gly109fs Multiple submitters intellectual developmental disorder 62
  • p.Gly176fs Multiple submitters intellectual developmental disorder 62
  • p.Gly82fs Multiple submitters intellectual developmental disorder 62
  • p.Lys202fs Multiple submitters intellectual developmental disorder 62
  • p.Lys558Ter Multiple submitters intellectual developmental disorder 62
  • p.Phe487fs Multiple submitters intellectual developmental disorder 62
  • p.Ser73Ter Multiple submitters intellectual developmental disorder 62
  • p.Thr566fs Multiple submitters Neurodevelopmental delay
  • p.Trp471Ter Multiple submitters intellectual disability
  • p.Trp499Ter Multiple submitters intellectual developmental disorder 62
  • p.Tyr264Ter Multiple submitters intellectual developmental disorder 62
  • p.Val619fs Multiple submitters intellectual developmental disorder 62
  • p.Val692fs Multiple submitters intellectual developmental disorder 62
  • c.1184_1186+7del Single submitter
  • c.1295_1301+10del Single submitter intellectual developmental disorder 62
  • c.1869dupG Single submitter intellectual developmental disorder 62
  • c.1976+235C>T Single submitter intellectual developmental disorder 62
  • c.1977-2A>G Single submitter
  • c.335+1G>A Single submitter Inborn genetic diseases
  • c.788-1669_1302-397del Single submitter intellectual developmental disorder 62
  • c.788-1G>C Single submitter Neurodevelopmental abnormality
  • p.Ala249_Tyr250insTer Single submitter
  • p.Asn326fs Single submitter intellectual developmental disorder 62
  • p.Asp43fs Single submitter intellectual developmental disorder 62
  • p.Asp695Ter Single submitter intellectual developmental disorder 62
  • p.Gln266Ter Single submitter intellectual developmental disorder 62
  • p.Gln32Ter Single submitter intellectual developmental disorder 62
  • p.Gln374Ter Single submitter
  • p.Glu65fs Single submitter
  • p.Gly169Val Single submitter
  • p.Gly49fs Single submitter intellectual developmental disorder 62
  • p.His461fs Single submitter intellectual developmental disorder 62
  • p.Leu137fs Single submitter intellectual developmental disorder 62
  • p.Leu452fs Single submitter
  • p.Lys138fs Single submitter
  • p.Lys441fs Single submitter intellectual developmental disorder 62
  • p.Lys505fs Single submitter intellectual developmental disorder 62
  • p.Phe431fs Single submitter
  • p.Pro311fs Single submitter intellectual developmental disorder 62
  • p.Ser414fs Single submitter Inborn genetic diseases
  • p.Tyr240Ter Single submitter intellectual developmental disorder 62
  • p.Tyr255Ter Single submitter
  • p.Tyr392Ter Single submitter intellectual developmental disorder 62
  • p.Val328fs Single submitter intellectual developmental disorder 62

Pathogenic/Likely pathogenic 20

  • c.1084-1G>T Multiple submitters intellectual developmental disorder 62
  • c.1478+2T>C Multiple submitters intellectual developmental disorder 62
  • c.1592-1G>A Multiple submitters intellectual developmental disorder 62
  • c.1693+1G>A Multiple submitters intellectual developmental disorder 62
  • c.1866+2T>C Multiple submitters intellectual developmental disorder 62
  • c.211-2A>G Multiple submitters intellectual developmental disorder 62
  • c.787+2T>C Multiple submitters intellectual developmental disorder 62
  • p.Ala214= Multiple submitters intellectual developmental disorder 62
  • p.Arg309Ter Multiple submitters intellectual developmental disorder 62
  • p.Arg496Ter Multiple submitters intellectual developmental disorder 62
  • p.Arg497Ter Multiple submitters intellectual developmental disorder 62
  • p.Asp186Val Multiple submitters intellectual developmental disorder 62
  • p.Asp479Ter Multiple submitters intellectual developmental disorder 62
  • p.Cys626Ter Multiple submitters intellectual developmental disorder 62
  • p.Glu572fs Multiple submitters Marfanoid habitus and intellectual disability
  • p.Gly177Val Multiple submitters intellectual developmental disorder 62
  • p.Phe340fs Multiple submitters Marfanoid habitus and intellectual disability
  • p.Ser361= Multiple submitters intellectual developmental disorder 62
  • p.Thr611Ile Multiple submitters intellectual developmental disorder 62
  • p.Tyr50fs Multiple submitters intellectual developmental disorder 62

Likely pathogenic 25

  • c.1543+2T>C Multiple submitters Marfanoid habitus and intellectual disability
  • c.210+1G>T Multiple submitters intellectual developmental disorder 62
  • p.Leu4fs Multiple submitters intellectual developmental disorder 62
  • c.1186+2T>G Single submitter intellectual developmental disorder 62
  • c.1479-2A>G Single submitter intellectual developmental disorder 62
  • c.1591+1G>A Single submitter
  • c.1694-18G>A Single submitter intellectual developmental disorder 62
  • c.1866+1G>T Single submitter
  • c.505+1G>T Single submitter intellectual developmental disorder 62
  • c.506-1G>T Single submitter intellectual developmental disorder 62
  • c.506-2A>G Single submitter intellectual developmental disorder 62
  • c.643-1G>T Single submitter intellectual developmental disorder 62
  • p.Arg568Gln Single submitter
  • p.Glu334Ter Single submitter intellectual developmental disorder 62
  • p.Glu524fs Single submitter intellectual developmental disorder 62
  • p.Ile646fs Single submitter intellectual developmental disorder 62
  • p.Phe649fs Single submitter intellectual developmental disorder 62
  • p.Pro258fs Single submitter intellectual developmental disorder 62
  • p.Pro564Ser Single submitter intellectual developmental disorder 62
  • p.Ser490fs Single submitter intellectual developmental disorder 62
  • p.Ser510fs Single submitter
  • p.Trp13Ter Single submitter
  • c.210+2del No assertion criteria intellectual developmental disorder 62
  • p.Arg497fs No assertion criteria intellectual developmental disorder 62
  • p.Pro536Leu No assertion criteria intellectual developmental disorder 62

Conflicting classifications of pathogenicity 4

Benign 9

  • c.-1072A>G Expert panel very long chain acyl-CoA dehydrogenase deficiency
  • p.Ile389= Multiple submitters intellectual developmental disorder 62
  • p.Tyr580= Multiple submitters
  • c.30+18G>A Single submitter intellectual developmental disorder 62
  • c.-12A>G Single submitter
  • p.Pro153= Single submitter
  • p.Ser32Gly Single submitter
  • p.Glu686= No assertion criteria DLG4-related disorder
  • p.Thr482= No assertion criteria DLG4-related disorder

Benign/Likely benign 1

Likely benign 33

Uncertain significance 135