CRELD1 — 220 ClinVar variants

All ClinVar germline CRELD1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 100 flagged for review →

11 Pathogenic · 4 Likely pathogenic · 10 Conflicting · 23 Benign · 7 Benign/Likely benign · 48 Likely benign · 117 Uncertain significance

Full CRELD1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 100

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.

Predictors agree, ClinVar conflicts 4

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 42

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

All CRELD1 variants

Pathogenic 11

  • c.1048+417_1048+418del Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Arg175Ter Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Asp66fs Single submitter
  • p.Asp85fs Single submitter
  • p.Glu225fs Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ile64fs Single submitter Jeffries-Lakhani neurodevelopmental syndrome
  • p.Trp133Ter Single submitter
  • c.1049-401C>A No assertion criteria ventricular septal defect 1
  • p.Arg288Leu No assertion criteria congenital heart defects, multiple types, 4 ⚠
  • p.Gly196Val No assertion criteria ventricular septal defect 1 ⚠
  • p.Trp75Arg No assertion criteria congenital heart defects, multiple types, 4

Likely pathogenic 4

  • c.460+1G>A Multiple submitters Inborn genetic diseases
  • c.913+1G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ala275fs Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Cys321fs Single submitter

Conflicting classifications of pathogenicity 10

  • p.Arg107His Single submitter atrioventricular septal defect, susceptibility to, 2 ⚠
  • p.Arg220Gln Single submitter atrioventricular septal defect, susceptibility to, 2 ⚠
  • p.Arg220Ter Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Asp386Asn Single submitter Inborn genetic diseases ⚠
  • p.Cys192Tyr Single submitter Inborn genetic diseases ⚠
  • p.Cys262Arg Single submitter Inborn genetic diseases ⚠
  • p.Gln320fs Single submitter Jeffries-Lakhani neurodevelopmental syndrome
  • p.Glu266fs Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Gly189fs Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Lys233Asn Single submitter Inborn genetic diseases ⚠

Benign 23

  • c.1048+258T>C Multiple submitters
  • c.1049-376T>C Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.1049-393C>T Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.257+263C>T Multiple submitters
  • c.369-39A>G Multiple submitters
  • c.461-89A>G Multiple submitters
  • c.-19-244T>C Multiple submitters
  • c.-19-86G>T Multiple submitters
  • p.Gln368= Multiple submitters
  • p.Leu304= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Met13= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Met13Val Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Pro128Arg Multiple submitters atrioventricular septal defect, susceptibility to, 2 ⚠
  • p.Pro315= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.1048+14C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-270C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.257+10T>G Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.461-217A>G Single submitter
  • c.461-88AGGGAG[6] Single submitter
  • c.637+20G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.733+16G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.-52C>T Single submitter
  • p.Gly326= Single submitter atrioventricular septal defect, susceptibility to, 2

Benign/Likely benign 7

  • c.1049-299C>G Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.1049-352C>T Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.258-13C>A Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Ala206Thr Multiple submitters atrioventricular septal defect, susceptibility to, 2 ⚠
  • p.Ile417Val Multiple submitters
  • p.Pro31= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Tyr166= Multiple submitters atrioventricular septal defect, susceptibility to, 2

Likely benign 48

  • c.1049-316T>C Multiple submitters
  • c.369-3C>T Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Arg329Cys Multiple submitters atrioventricular septal defect, susceptibility to, 2 ⚠
  • p.Glu308= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Glu340Lys Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Thr311Ile Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • p.Thr88= Multiple submitters atrioventricular septal defect, susceptibility to, 2
  • c.1048+15G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1048+369T>C Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1048+380G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1048+388T>G Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-259C>G Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-282G>C Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-317C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-324C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.1049-405T>G Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.174+11C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.175-18C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.175-19A>G Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.257+14G>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.258-6G>A Single submitter
  • c.258-7C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.368+7G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.733+9G>A Single submitter atrioventricular septal defect, susceptibility to, 2
  • c.914-9C>T Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ala185= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ala398= Single submitter
  • p.Ala74= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Asn22= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Cys152= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Cys163= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Glu104= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Glu248= Single submitter
  • p.Gly96= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Leu130= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Leu238= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Lys276= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Lys337= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Phe103= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Phe200= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Pro11= Single submitter
  • p.Pro144= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ser212= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ser222= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Ser406= Single submitter
  • p.Thr147= Single submitter atrioventricular septal defect, susceptibility to, 2
  • p.Tyr187= Single submitter
  • p.Glu360= No assertion criteria CRELD1-related disorder

Uncertain significance 117