RSPH4A — 418 ClinVar variants

All ClinVar germline RSPH4A variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 197 flagged for review →

39 Pathogenic · 5 Pathogenic/Likely pathogenic · 12 Likely pathogenic · 23 Conflicting · 17 Benign · 12 Benign/Likely benign · 101 Likely benign · 209 Uncertain significance

Full RSPH4A gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 197

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 12

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

Predictors lean, ClinVar uncertain 138

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

Predictors split 47

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

All RSPH4A variants

Pathogenic 39

  • c.921+3_921+6del Multiple submitters primary ciliary dyskinesia
  • p.Arg465Ter Multiple submitters primary ciliary dyskinesia
  • p.Arg485Ter Multiple submitters primary ciliary dyskinesia
  • p.Arg520Ter Multiple submitters primary ciliary dyskinesia 11
  • p.Gln144Ter Multiple submitters primary ciliary dyskinesia 11
  • p.Gln154Ter Multiple submitters Respiratory ciliopathies including non-CF bronchiectasis
  • p.Gln451Ter Multiple submitters RSPH4A-related disorder
  • p.Leu592fs Multiple submitters primary ciliary dyskinesia 11
  • p.Thr424fs Multiple submitters RSPH4A-related disorder
  • c.1917-3_1917del Single submitter primary ciliary dyskinesia
  • p.Ala416fs Single submitter primary ciliary dyskinesia
  • p.Asp578fs Single submitter primary ciliary dyskinesia
  • p.Asp655fs Single submitter primary ciliary dyskinesia 11
  • p.Gln109Ter Single submitter primary ciliary dyskinesia
  • p.Gln155fs Single submitter primary ciliary dyskinesia
  • p.Gln173Ter Single submitter primary ciliary dyskinesia
  • p.Gln54Ter Single submitter primary ciliary dyskinesia 11
  • p.Gln564Ter Single submitter primary ciliary dyskinesia
  • p.Gln618Ter Single submitter primary ciliary dyskinesia
  • p.Gln625Ter Single submitter primary ciliary dyskinesia
  • p.Glu175fs Single submitter primary ciliary dyskinesia
  • p.Glu282Ter Single submitter primary ciliary dyskinesia 11
  • p.Glu421Ter Single submitter primary ciliary dyskinesia
  • p.Glu570fs Single submitter primary ciliary dyskinesia
  • p.Gly464Glu Single submitter primary ciliary dyskinesia
  • p.Ile470fs Single submitter primary ciliary dyskinesia
  • p.Leu160fs Single submitter primary ciliary dyskinesia
  • p.Phe644fs Single submitter primary ciliary dyskinesia
  • p.Ser4Ter Single submitter primary ciliary dyskinesia
  • p.Thr69fs Single submitter primary ciliary dyskinesia
  • p.Trp356Ter Single submitter primary ciliary dyskinesia
  • p.Trp441Ter Single submitter primary ciliary dyskinesia
  • p.Trp544Ter Single submitter primary ciliary dyskinesia 11
  • p.Trp607Ter Single submitter primary ciliary dyskinesia
  • p.Tyr230Ter Single submitter primary ciliary dyskinesia
  • p.Tyr281Ter Single submitter primary ciliary dyskinesia
  • p.Tyr321fs Single submitter
  • p.Val116fs Single submitter
  • p.Ser223fs No assertion criteria primary ciliary dyskinesia 11

Pathogenic/Likely pathogenic 5

  • c.1662+2_1662+5del Multiple submitters primary ciliary dyskinesia
  • p.Arg490Ter Multiple submitters primary ciliary dyskinesia
  • p.Gln564fs Multiple submitters primary ciliary dyskinesia
  • p.Phe338fs Multiple submitters primary ciliary dyskinesia
  • p.Ser498fs Multiple submitters primary ciliary dyskinesia

Likely pathogenic 12

  • c.1662+2T>C Single submitter primary ciliary dyskinesia
  • c.686+1G>A Single submitter primary ciliary dyskinesia
  • c.921+2T>C Single submitter primary ciliary dyskinesia
  • c.922-1G>A Single submitter primary ciliary dyskinesia
  • p.Glu370Ter Single submitter primary ciliary dyskinesia
  • p.Glu405Ter Single submitter primary ciliary dyskinesia 11
  • p.Lys286fs Single submitter RSPH4A-related disorder
  • p.Ser205fs Single submitter primary ciliary dyskinesia 11
  • p.Ser613Ter Single submitter primary ciliary dyskinesia
  • p.Ser671fs Single submitter primary ciliary dyskinesia
  • p.Thr79fs Single submitter RSPH4A-related disorder
  • p.Trp607fs Single submitter primary ciliary dyskinesia

Conflicting classifications of pathogenicity 23

Benign 17

Benign/Likely benign 12

  • c.1798+11G>A Multiple submitters primary ciliary dyskinesia 11
  • c.*8A>G Multiple submitters primary ciliary dyskinesia 11
  • p.Ala700Val Multiple submitters primary ciliary dyskinesia 11
  • p.Arg244His Multiple submitters primary ciliary dyskinesia ⚠
  • p.Arg556His Multiple submitters primary ciliary dyskinesia ⚠
  • p.Asn627His Multiple submitters primary ciliary dyskinesia ⚠
  • p.Glu512= Multiple submitters primary ciliary dyskinesia
  • p.Leu360Phe Multiple submitters primary ciliary dyskinesia
  • p.Leu589Pro Multiple submitters primary ciliary dyskinesia
  • p.Lys577= Multiple submitters primary ciliary dyskinesia
  • p.Thr149Ser Multiple submitters primary ciliary dyskinesia
  • p.Val497Ile Multiple submitters primary ciliary dyskinesia

Likely benign 101

  • c.1916+101G>T Multiple submitters
  • c.1916+102T>G Multiple submitters
  • c.921+37G>C Multiple submitters
  • p.Arg164= Multiple submitters primary ciliary dyskinesia
  • p.Asp165= Multiple submitters primary ciliary dyskinesia
  • p.Asp386= Multiple submitters primary ciliary dyskinesia
  • p.Asp578= Multiple submitters primary ciliary dyskinesia
  • p.Gln415= Multiple submitters primary ciliary dyskinesia
  • p.Glu570= Multiple submitters primary ciliary dyskinesia
  • p.His547= Multiple submitters primary ciliary dyskinesia
  • p.Leu277= Multiple submitters primary ciliary dyskinesia
  • p.Leu698= Multiple submitters primary ciliary dyskinesia
  • p.Lys640= Multiple submitters primary ciliary dyskinesia
  • p.Pro407= Multiple submitters primary ciliary dyskinesia
  • p.Ser225= Multiple submitters primary ciliary dyskinesia
  • p.Ser93= Multiple submitters primary ciliary dyskinesia
  • c.1662+13C>T Single submitter primary ciliary dyskinesia
  • c.1662+50T>C Single submitter
  • c.1662+8C>A Single submitter primary ciliary dyskinesia
  • c.1663-16C>T Single submitter primary ciliary dyskinesia
  • c.1663-226C>T Single submitter
  • c.1798+10C>T Single submitter primary ciliary dyskinesia
  • c.1798+11G>C Single submitter primary ciliary dyskinesia
  • c.1799-10del Single submitter primary ciliary dyskinesia
  • c.1799-13_1799-12del Single submitter primary ciliary dyskinesia
  • c.1917-15T>G Single submitter primary ciliary dyskinesia
  • c.1917-6T>C Single submitter
  • c.686+13G>A Single submitter primary ciliary dyskinesia
  • c.686+20A>T Single submitter primary ciliary dyskinesia
  • c.686+229C>T Single submitter
  • c.687-20A>C Single submitter primary ciliary dyskinesia
  • c.921+11A>T Single submitter primary ciliary dyskinesia
  • c.921+17A>C Single submitter primary ciliary dyskinesia
  • c.921+96TTGTT[4] Single submitter
  • c.922-16G>A Single submitter primary ciliary dyskinesia
  • c.922-18C>T Single submitter primary ciliary dyskinesia
  • c.*250G>T Single submitter primary ciliary dyskinesia 11
  • c.*491T>C Single submitter primary ciliary dyskinesia 11
  • p.Ala270= Single submitter primary ciliary dyskinesia
  • p.Ala416= Single submitter primary ciliary dyskinesia
  • p.Ala468= Single submitter primary ciliary dyskinesia
  • p.Ala516= Single submitter primary ciliary dyskinesia
  • p.Ala632= Single submitter primary ciliary dyskinesia
  • p.Ala67Val Single submitter primary ciliary dyskinesia
  • p.Arg465= Single submitter primary ciliary dyskinesia
  • p.Arg520= Single submitter primary ciliary dyskinesia
  • p.Asn13= Single submitter
  • p.Asn558= Single submitter primary ciliary dyskinesia
  • p.Asp185= Single submitter primary ciliary dyskinesia
  • p.Gln151= Single submitter primary ciliary dyskinesia
  • p.Gln152= Single submitter primary ciliary dyskinesia
  • p.Gln155= Single submitter primary ciliary dyskinesia
  • p.Gln212= Single submitter
  • p.Gln272= Single submitter primary ciliary dyskinesia
  • p.Glu253= Single submitter
  • p.Glu377= Single submitter primary ciliary dyskinesia
  • p.Glu395Asp Single submitter primary ciliary dyskinesia
  • p.Glu515= Single submitter primary ciliary dyskinesia
  • p.Glu530= Single submitter primary ciliary dyskinesia
  • p.Glu584= Single submitter primary ciliary dyskinesia
  • p.Glu711= Single submitter primary ciliary dyskinesia
  • p.Gly294= Single submitter primary ciliary dyskinesia
  • p.Gly518= Single submitter primary ciliary dyskinesia
  • p.Gly555= Single submitter
  • p.Gly73= Single submitter primary ciliary dyskinesia
  • p.His496= Single submitter primary ciliary dyskinesia
  • p.Ile470= Single submitter primary ciliary dyskinesia
  • p.Ile601= Single submitter primary ciliary dyskinesia
  • p.Leu360= Single submitter primary ciliary dyskinesia
  • p.Leu362= Single submitter primary ciliary dyskinesia
  • p.Leu444= Single submitter primary ciliary dyskinesia
  • p.Leu500= Single submitter primary ciliary dyskinesia
  • p.Leu97Pro Single submitter primary ciliary dyskinesia
  • p.Lys412= Single submitter primary ciliary dyskinesia
  • p.Pro125= Single submitter primary ciliary dyskinesia
  • p.Pro195= Single submitter primary ciliary dyskinesia
  • p.Pro204= Single submitter
  • p.Pro279= Single submitter primary ciliary dyskinesia
  • p.Pro499= Single submitter primary ciliary dyskinesia
  • p.Pro605Thr Single submitter primary ciliary dyskinesia
  • p.Pro74= Single submitter primary ciliary dyskinesia
  • p.Pro87= Single submitter primary ciliary dyskinesia
  • p.Pro94= Single submitter primary ciliary dyskinesia
  • p.Ser110= Single submitter primary ciliary dyskinesia
  • p.Ser132= Single submitter primary ciliary dyskinesia
  • p.Ser522= Single submitter primary ciliary dyskinesia
  • p.Ser6= Single submitter primary ciliary dyskinesia
  • p.Ser612= Single submitter
  • p.Ser91= Single submitter primary ciliary dyskinesia
  • p.Thr142= Single submitter primary ciliary dyskinesia
  • p.Thr5= Single submitter primary ciliary dyskinesia
  • p.Tyr190= Single submitter primary ciliary dyskinesia
  • p.Tyr217= Single submitter primary ciliary dyskinesia
  • p.Tyr429= Single submitter primary ciliary dyskinesia
  • p.Tyr473= Single submitter primary ciliary dyskinesia
  • p.Val180= Single submitter primary ciliary dyskinesia
  • p.Val299Ala Single submitter primary ciliary dyskinesia
  • p.Val327= Single submitter primary ciliary dyskinesia
  • p.Val371= Single submitter primary ciliary dyskinesia
  • p.Val538= Single submitter
  • p.Val85= Single submitter primary ciliary dyskinesia

Uncertain significance 209