LCA5 — 908 ClinVar variants

All ClinVar germline LCA5 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 292 flagged for review →

70 Pathogenic · 31 Pathogenic/Likely pathogenic · 55 Likely pathogenic · 36 Conflicting · 12 Benign · 7 Benign/Likely benign · 325 Likely benign · 372 Uncertain significance

Full LCA5 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 292

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 13

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 241

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 241

Predictors split 37

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

All LCA5 variants

Pathogenic 70

Pathogenic/Likely pathogenic 31

  • c.190+1G>A Multiple submitters LCA5-related disorder
  • c.721-1G>A Multiple submitters Leber congenital amaurosis 5
  • c.721-2A>T Multiple submitters LCA5-related disorder
  • p.Ala184fs Multiple submitters Leber congenital amaurosis
  • p.Ala319Thr Multiple submitters Leber congenital amaurosis 1 ⚠
  • p.Ala425fs Multiple submitters Leber congenital amaurosis 5
  • p.Arg218Ter Multiple submitters Leber congenital amaurosis 5
  • p.Arg35Ter Multiple submitters Leber congenital amaurosis 5
  • p.Arg482Ter Multiple submitters Leber congenital amaurosis 5
  • p.Arg517fs Multiple submitters Leber congenital amaurosis 5
  • p.Arg80Ter Multiple submitters LCA5-related disorder
  • p.Asn251fs Multiple submitters Leber congenital amaurosis 5
  • p.Asn318fs Multiple submitters LCA5-related disorder
  • p.Asn50fs Multiple submitters Leber congenital amaurosis 5
  • p.Glu13fs Multiple submitters Leber congenital amaurosis 5
  • p.Glu460Ter Multiple submitters Leber congenital amaurosis 5
  • p.Glu503Ter Multiple submitters LCA5-related disorder
  • p.Leu203fs Multiple submitters Leber congenital amaurosis 5
  • p.Leu489fs Multiple submitters LCA5-related disorder
  • p.Leu577fs Multiple submitters Leber congenital amaurosis 5
  • p.Lys172fs Multiple submitters Leber congenital amaurosis
  • p.Lys586Ter Multiple submitters LCA5-related disorder
  • p.Met1Ile Multiple submitters Leber congenital amaurosis
  • p.Met1Thr Multiple submitters Leber congenital amaurosis
  • p.Met1Val Multiple submitters Leber congenital amaurosis 5
  • p.Pro487fs Multiple submitters LCA5-related disorder
  • p.Ser135_Leu136insTer Multiple submitters Leber congenital amaurosis 5
  • p.Ser249fs Multiple submitters Leber congenital amaurosis 5
  • p.Ser37Ter Multiple submitters Leber congenital amaurosis 5
  • p.Thr192fs Multiple submitters Leber congenital amaurosis 5
  • p.Tyr354Ter Multiple submitters Leber congenital amaurosis 5

Likely pathogenic 55

Conflicting classifications of pathogenicity 36

Benign 12

Benign/Likely benign 7

  • c.1099-12A>G Multiple submitters Leber congenital amaurosis 5
  • c.191-3del Multiple submitters
  • c.859-12G>C Multiple submitters Leber congenital amaurosis 5
  • p.Gln256= Multiple submitters Leber congenital amaurosis 5
  • p.His214= Multiple submitters Leber congenital amaurosis 5
  • p.Ile595= Multiple submitters Leber congenital amaurosis 5
  • p.Pro361= Multiple submitters Leber congenital amaurosis

Likely benign 325

Showing the top 300 by review status; the full set is in the sitemap.

Uncertain significance 372

Showing the top 300 by review status; the full set is in the sitemap.