RPGR — 1825 ClinVar variants

All ClinVar germline RPGR variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 262 flagged for review →

405 Pathogenic · 82 Pathogenic/Likely pathogenic · 269 Likely pathogenic · 101 Conflicting · 103 Benign · 28 Benign/Likely benign · 329 Likely benign · 508 Uncertain significance

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

⚑ Evidence disagreements 262

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 4

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 38

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

Predictors lean, ClinVar uncertain 182

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 182

Predictors split 38

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

All RPGR variants

Pathogenic 405

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

Pathogenic/Likely pathogenic 82

  • c.247+1G>A Multiple submitters RPGR-related disorder
  • c.248-10A>G Multiple submitters RPGR-related disorder
  • c.29-1G>T Multiple submitters RPGR-related disorder
  • c.29-2A>G Multiple submitters retinitis pigmentosa 3
  • c.470-1G>A Multiple submitters RPGR-related disorder
  • c.619+2T>C Multiple submitters primary ciliary dyskinesia
  • c.778+1G>A Multiple submitters primary ciliary dyskinesia
  • p.Ala110fs Multiple submitters RPGR-related disorder
  • p.Ala74fs Multiple submitters RPGR-related disorder
  • p.Arg409fs Multiple submitters X-linked cone-rod dystrophy 1
  • p.Arg745fs Multiple submitters retinitis pigmentosa
  • p.Arg804fs Multiple submitters inherited retinal dystrophy
  • p.Arg804Ter Multiple submitters retinitis pigmentosa
  • p.Arg826fs Multiple submitters inherited retinal dystrophy
  • p.Asn1077fs Multiple submitters RPGR-related disorder
  • p.Asp628fs Multiple submitters RPGR-related disorder
  • p.Asp680fs Multiple submitters retinitis pigmentosa
  • p.Cys250Tyr Multiple submitters RPGR-related disorder
  • p.Cys356Ter Multiple submitters primary ciliary dyskinesia
  • p.Gln144Ter Multiple submitters RPGR-related disorder
  • p.Gln523Ter Multiple submitters inherited retinal dystrophy
  • p.Glu1004Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu1006fs Multiple submitters RPGR-related disorder
  • p.Glu1037Ter Multiple submitters inherited retinal dystrophy
  • p.Glu1060fs Multiple submitters primary ciliary dyskinesia
  • p.Glu1062Ter Multiple submitters retinitis pigmentosa 3
  • p.Glu1084_Tyr1085insTer Multiple submitters primary ciliary dyskinesia
  • p.Glu169Ter Multiple submitters RPGR-related disorder
  • p.Glu240Ter Multiple submitters RPGR-related disorder
  • p.Glu376Ter Multiple submitters RPGR-related disorder
  • p.Glu379Ter Multiple submitters inherited retinal dystrophy
  • p.Glu45Ter Multiple submitters retinitis pigmentosa
  • p.Glu512Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu687Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu691fs Multiple submitters primary ciliary dyskinesia
  • p.Glu691Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu746fs Multiple submitters retinitis pigmentosa 3
  • p.Glu774fs Multiple submitters inherited retinal dystrophy
  • p.Glu788fs Multiple submitters retinitis pigmentosa 3
  • p.Glu797fs Multiple submitters primary ciliary dyskinesia
  • p.Glu806Ter Multiple submitters RPGR-related disorder
  • p.Glu807Ter Multiple submitters inherited retinal dystrophy
  • p.Glu813Ter Multiple submitters RPGR-related disorder
  • p.Glu818_Val819insTer Multiple submitters
  • p.Glu818Ter Multiple submitters RPGR-related disorder
  • p.Glu820fs Multiple submitters primary ciliary dyskinesia
  • p.Glu828Ter Multiple submitters retinitis pigmentosa 3
  • p.Glu843Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu846fs Multiple submitters primary ciliary dyskinesia
  • p.Glu848fs Multiple submitters RPGR-related disorder
  • p.Glu869Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu875fs Multiple submitters RPGR-related disorder
  • p.Glu877fs Multiple submitters RPGR-related disorder
  • p.Glu898Ter Multiple submitters primary ciliary dyskinesia
  • p.Glu903fs Multiple submitters primary ciliary dyskinesia
  • p.Glu926fs Multiple submitters RPGR-related disorder
  • p.Glu940fs Multiple submitters RPGR-related disorder
  • p.Glu956fs Multiple submitters primary ciliary dyskinesia
  • p.Glu958fs Multiple submitters Retinitis pigmentosa, X-linked, and sinorespiratory infections, with or without deafness
  • p.Glu960Ter Multiple submitters RPGR-related disorder
  • p.Glu963fs Multiple submitters retinitis pigmentosa
  • p.Glu965fs Multiple submitters RPGR-related disorder
  • p.Glu965Ter Multiple submitters RPGR-related disorder
  • p.Glu973fs Multiple submitters retinitis pigmentosa 3
  • p.Glu991fs Multiple submitters primary ciliary dyskinesia
  • p.Glu998fs Multiple submitters RPGR-related disorder
  • p.Gly65Asp Multiple submitters RPGR-related disorder
  • p.Gly753Ter Multiple submitters retinitis pigmentosa 3
  • p.Gly766fs Multiple submitters retinitis pigmentosa
  • p.Gly816fs Multiple submitters retinitis pigmentosa
  • p.Gly817fs Multiple submitters retinitis pigmentosa 3
  • p.Gly883Ter Multiple submitters retinitis pigmentosa
  • p.Gly953fs Multiple submitters primary ciliary dyskinesia
  • p.Lys1105Ter Multiple submitters RPGR-related disorder
  • p.Lys143Ter Multiple submitters primary ciliary dyskinesia
  • p.Lys783fs Multiple submitters inherited retinal dystrophy
  • p.Lys786fs Multiple submitters retinitis pigmentosa
  • p.Lys85fs Multiple submitters RPGR-related disorder
  • p.Phe319fs Multiple submitters RPGR-related disorder
  • p.Ser596Ter Multiple submitters primary ciliary dyskinesia
  • p.Tyr212Ter Multiple submitters RPGR-related disorder
  • p.Val819fs Multiple submitters primary ciliary dyskinesia

Likely pathogenic 269

Conflicting classifications of pathogenicity 101

Benign 103

Benign/Likely benign 28

  • c.1415-17C>G Multiple submitters primary ciliary dyskinesia
  • c.1754-10C>G Multiple submitters primary ciliary dyskinesia
  • c.2242-8T>C Multiple submitters primary ciliary dyskinesia
  • c.310+10T>C Multiple submitters primary ciliary dyskinesia
  • c.620-41T>C Multiple submitters
  • c.778+13T>A Multiple submitters primary ciliary dyskinesia
  • p.1021_1024VEGE[1] Multiple submitters primary ciliary dyskinesia
  • p.1021VEGE[1] Multiple submitters inherited retinal dystrophy
  • p.829EEEEGEG[3] Multiple submitters primary ciliary dyskinesia
  • p.Ala74= Multiple submitters primary ciliary dyskinesia
  • p.Asp636Tyr Multiple submitters primary ciliary dyskinesia
  • p.Asp789Asn Multiple submitters primary ciliary dyskinesia
  • p.Cys302Ser Multiple submitters primary ciliary dyskinesia
  • p.Gln527del Multiple submitters primary ciliary dyskinesia
  • p.Glu1018del Multiple submitters primary ciliary dyskinesia
  • p.Glu779del Multiple submitters primary ciliary dyskinesia
  • p.Glu846_Glu853del Multiple submitters primary ciliary dyskinesia
  • p.Glu951= Multiple submitters primary ciliary dyskinesia
  • p.Gly878= Multiple submitters primary ciliary dyskinesia
  • p.Ile576= Multiple submitters primary ciliary dyskinesia
  • p.Ile775Thr Multiple submitters primary ciliary dyskinesia
  • p.Ile775Val Multiple submitters primary ciliary dyskinesia
  • p.Leu645= Multiple submitters primary ciliary dyskinesia
  • p.Lys716Glu Multiple submitters primary ciliary dyskinesia
  • p.Pro1134= Multiple submitters primary ciliary dyskinesia
  • p.Ser756Leu Multiple submitters primary ciliary dyskinesia
  • p.Thr536= Multiple submitters primary ciliary dyskinesia
  • p.Thr570= Multiple submitters primary ciliary dyskinesia

Likely benign 329

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

Uncertain significance 508

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