RSPH9 — 235 ClinVar variants

All ClinVar germline RSPH9 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 92 flagged for review →

13 Pathogenic · 2 Pathogenic/Likely pathogenic · 10 Likely pathogenic · 9 Conflicting · 21 Benign · 5 Benign/Likely benign · 72 Likely benign · 103 Uncertain significance

Full RSPH9 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 92

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 4

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

Predictors lean, ClinVar uncertain 63

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

Predictors split 25

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

All RSPH9 variants

Pathogenic 13

  • p.Arg156Ter Multiple submitters RSPH9-related disorder
  • p.Tyr39Ter Multiple submitters primary ciliary dyskinesia
  • p.Gln67fs Single submitter primary ciliary dyskinesia
  • p.Gln95Ter Single submitter primary ciliary dyskinesia
  • p.Glu192fs Single submitter primary ciliary dyskinesia
  • p.Glu267fs Single submitter primary ciliary dyskinesia 12
  • p.Glu267Ter Single submitter primary ciliary dyskinesia
  • p.Met1Leu Single submitter primary ciliary dyskinesia
  • p.Met1Thr Single submitter primary ciliary dyskinesia
  • p.Met1Val Single submitter primary ciliary dyskinesia
  • p.Trp82Ter Single submitter primary ciliary dyskinesia
  • p.Tyr111Ter Single submitter
  • p.Gln18Ter No assertion criteria primary ciliary dyskinesia 12

Pathogenic/Likely pathogenic 2

  • p.Lys268del Multiple submitters primary ciliary dyskinesia
  • p.Val44fs Multiple submitters primary ciliary dyskinesia

Likely pathogenic 10

  • c.228-6T>A Single submitter primary ciliary dyskinesia
  • c.393+1G>A Single submitter primary ciliary dyskinesia
  • c.393+2del Single submitter primary ciliary dyskinesia
  • c.523+1G>C Single submitter primary ciliary dyskinesia
  • p.Cys79Ter Single submitter combined immunodeficiency with skin granulomas
  • p.His251Arg Single submitter RSPH9-related disorder
  • p.Leu7fs Single submitter primary ciliary dyskinesia 12
  • p.Trp226Ter Single submitter RSPH9-related disorder
  • p.Val98fs Single submitter RSPH9-related disorder
  • p.Trp82fs No assertion criteria primary ciliary dyskinesia

Conflicting classifications of pathogenicity 9

  • c.393+13G>A Single submitter primary ciliary dyskinesia
  • p.Arg171Gln Single submitter primary ciliary dyskinesia 12 ⚠
  • p.Arg240= Single submitter primary ciliary dyskinesia
  • p.Gly266= Single submitter primary ciliary dyskinesia
  • p.Leu32Pro Single submitter primary ciliary dyskinesia ⚠
  • p.Met33Thr Single submitter primary ciliary dyskinesia ⚠
  • p.Pro245= Single submitter primary ciliary dyskinesia
  • p.Pro273= Single submitter primary ciliary dyskinesia 12
  • p.Val141Met Single submitter primary ciliary dyskinesia ⚠

Benign 21

Benign/Likely benign 5

  • c.671-4259C>T Multiple submitters primary ciliary dyskinesia 12
  • c.-18A>G Multiple submitters primary ciliary dyskinesia 12
  • p.Ala88Val Multiple submitters primary ciliary dyskinesia
  • p.Val125Leu Multiple submitters primary ciliary dyskinesia
  • p.Val261Ile Multiple submitters primary ciliary dyskinesia

Likely benign 72

  • c.227+9G>T Multiple submitters primary ciliary dyskinesia
  • p.Ala94= Multiple submitters primary ciliary dyskinesia
  • p.Arg232= Multiple submitters primary ciliary dyskinesia
  • p.Arg254= Multiple submitters primary ciliary dyskinesia
  • p.Asp66= Multiple submitters primary ciliary dyskinesia
  • p.His219= Multiple submitters primary ciliary dyskinesia
  • p.Leu239= Multiple submitters primary ciliary dyskinesia
  • p.Leu45= Multiple submitters primary ciliary dyskinesia
  • p.Ser96= Multiple submitters primary ciliary dyskinesia
  • p.Tyr109= Multiple submitters primary ciliary dyskinesia
  • p.Tyr260= Multiple submitters primary ciliary dyskinesia
  • p.Tyr262= Multiple submitters primary ciliary dyskinesia
  • c.227+14_227+19del Single submitter
  • c.227+14C>T Single submitter primary ciliary dyskinesia
  • c.227+15G>A Single submitter primary ciliary dyskinesia
  • c.227+15G>T Single submitter primary ciliary dyskinesia
  • c.227+17G>C Single submitter primary ciliary dyskinesia
  • c.227+20G>A Single submitter primary ciliary dyskinesia
  • c.228-8G>T Single submitter primary ciliary dyskinesia
  • c.393+11A>C Single submitter primary ciliary dyskinesia
  • c.393+220G>A Single submitter
  • c.523+10C>G Single submitter primary ciliary dyskinesia
  • c.523+17C>T Single submitter primary ciliary dyskinesia
  • c.523+19C>T Single submitter primary ciliary dyskinesia
  • c.523+220A>G Single submitter
  • c.524-164C>T Single submitter
  • c.524-17C>T Single submitter primary ciliary dyskinesia
  • c.670+16C>T Single submitter primary ciliary dyskinesia
  • c.671-104T>C Single submitter
  • c.671-10C>T Single submitter primary ciliary dyskinesia
  • c.671-4327C>T Single submitter
  • c.671-4348C>G Single submitter
  • c.671-4T>G Single submitter primary ciliary dyskinesia
  • c.671-5C>T Single submitter primary ciliary dyskinesia
  • c.671-8T>C Single submitter primary ciliary dyskinesia
  • p.Ala3= Single submitter primary ciliary dyskinesia
  • p.Arg24= Single submitter primary ciliary dyskinesia
  • p.Arg43= Single submitter primary ciliary dyskinesia
  • p.Arg71= Single submitter primary ciliary dyskinesia
  • p.Asn234= Single submitter
  • p.Asp208= Single submitter
  • p.Asp271= Single submitter primary ciliary dyskinesia
  • p.Asp4= Single submitter primary ciliary dyskinesia
  • p.Glu110= Single submitter primary ciliary dyskinesia
  • p.Glu195= Single submitter primary ciliary dyskinesia
  • p.Glu231= Single submitter primary ciliary dyskinesia
  • p.Gly157= Single submitter primary ciliary dyskinesia
  • p.His168= Single submitter primary ciliary dyskinesia
  • p.His251= Single submitter primary ciliary dyskinesia
  • p.Ile153= Single submitter primary ciliary dyskinesia
  • p.Leu211= Single submitter primary ciliary dyskinesia
  • p.Leu242= Single submitter primary ciliary dyskinesia
  • p.Leu28= Single submitter primary ciliary dyskinesia
  • p.Leu53= Single submitter primary ciliary dyskinesia
  • p.Leu6= Single submitter primary ciliary dyskinesia
  • p.Leu68= Single submitter primary ciliary dyskinesia
  • p.Leu85= Single submitter primary ciliary dyskinesia
  • p.Lys135= Single submitter primary ciliary dyskinesia
  • p.Lys36= Single submitter
  • p.Phe164= Single submitter primary ciliary dyskinesia
  • p.Phe249Ile Single submitter primary ciliary dyskinesia
  • p.Phe249Ser Single submitter primary ciliary dyskinesia
  • p.Phe249Thr Single submitter primary ciliary dyskinesia
  • p.Pro166= Single submitter primary ciliary dyskinesia
  • p.Pro22= Single submitter primary ciliary dyskinesia
  • p.Pro253= Single submitter primary ciliary dyskinesia
  • p.Ser9= Single submitter primary ciliary dyskinesia
  • p.Thr200= Single submitter
  • p.Thr248= Single submitter primary ciliary dyskinesia
  • p.Thr265= Single submitter primary ciliary dyskinesia
  • p.Val93Leu Single submitter familial acute necrotizing encephalopathy
  • p.Gly259= No assertion criteria RSPH9-related disorder

Uncertain significance 103