RSPH3 — 358 ClinVar variants

All ClinVar germline RSPH3 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 158 flagged for review →

20 Pathogenic · 4 Pathogenic/Likely pathogenic · 6 Likely pathogenic · 7 Conflicting · 25 Benign · 12 Benign/Likely benign · 125 Likely benign · 159 Uncertain significance

Full RSPH3 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 158

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 6

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

Predictors lean, ClinVar uncertain 123

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

Predictors split 29

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

All RSPH3 variants

Pathogenic 20

  • c.205-2A>G Multiple submitters RSPH3-related disorder
  • c.-95G>A Multiple submitters primary ciliary dyskinesia 32
  • c.859+1G>A Single submitter primary ciliary dyskinesia 32
  • c.-143del Single submitter primary ciliary dyskinesia 32
  • c.-220del Single submitter primary ciliary dyskinesia 32
  • c.-261_-260del Single submitter primary ciliary dyskinesia 32
  • c.-273G>T Single submitter primary ciliary dyskinesia 32
  • c.-292del Single submitter primary ciliary dyskinesia 32
  • c.-417A>T Single submitter primary ciliary dyskinesia 32
  • c.-5del Single submitter primary ciliary dyskinesia 32
  • c.-88_-86del Single submitter primary ciliary dyskinesia 32
  • p.Arg229Ter Single submitter primary ciliary dyskinesia 32
  • p.Arg256Ter Single submitter primary ciliary dyskinesia 32
  • p.Arg275fs Single submitter primary ciliary dyskinesia 32
  • p.Arg57Ter Single submitter primary ciliary dyskinesia 32
  • p.His110fs Single submitter primary ciliary dyskinesia 32
  • p.Thr152fs Single submitter primary ciliary dyskinesia 32
  • p.Arg227Ter No assertion criteria primary ciliary dyskinesia 32
  • p.Asn298fs No assertion criteria primary ciliary dyskinesia 32
  • p.Gln64Ter No assertion criteria primary ciliary dyskinesia 32

Pathogenic/Likely pathogenic 4

  • c.859+1G>T Multiple submitters primary ciliary dyskinesia 32
  • c.-207TG[1] Multiple submitters primary ciliary dyskinesia 32
  • c.-260dup Multiple submitters primary ciliary dyskinesia 32
  • c.-302_-301del Multiple submitters RSPH3-related disorder

Likely pathogenic 6

  • p.Gln94Ter Multiple submitters primary ciliary dyskinesia 32
  • c.346+1del Single submitter primary ciliary dyskinesia 32
  • c.346+1G>T Single submitter primary ciliary dyskinesia 32
  • p.Arg220Ter Single submitter RSPH3-related disorder
  • p.Pro72fs Single submitter
  • c.-85dup No assertion criteria RSPH3-related disorder

Conflicting classifications of pathogenicity 7

Benign 25

Benign/Likely benign 12

  • c.116+14C>T Multiple submitters primary ciliary dyskinesia 32
  • c.205-13C>T Multiple submitters primary ciliary dyskinesia 32
  • c.-220C>A Multiple submitters primary ciliary dyskinesia 32
  • p.Arg256Gln Multiple submitters primary ciliary dyskinesia 32 ⚠
  • p.Arg71Gln Multiple submitters primary ciliary dyskinesia 32
  • p.Arg81Gln Multiple submitters primary ciliary dyskinesia 32
  • p.Asn59Ser Multiple submitters primary ciliary dyskinesia 32 ⚠
  • p.Glu342Lys Multiple submitters primary ciliary dyskinesia 32
  • p.Gly376Asp Multiple submitters primary ciliary dyskinesia 32
  • p.His331Pro Multiple submitters primary ciliary dyskinesia 32
  • p.Met297Thr Multiple submitters primary ciliary dyskinesia 32 ⚠
  • p.Thr101= Multiple submitters primary ciliary dyskinesia 32

Likely benign 125

  • c.204+16A>G Multiple submitters primary ciliary dyskinesia 32
  • c.946+8A>G Multiple submitters primary ciliary dyskinesia 32
  • c.-136C>T Multiple submitters primary ciliary dyskinesia 32
  • c.-153C>T Multiple submitters primary ciliary dyskinesia 32
  • c.-19A>T Multiple submitters primary ciliary dyskinesia 32
  • c.-217A>C Multiple submitters primary ciliary dyskinesia 32
  • c.-304T>G Multiple submitters primary ciliary dyskinesia 32
  • c.-337T>C Multiple submitters primary ciliary dyskinesia 32
  • c.-601G>T Multiple submitters
  • p.Arg325= Multiple submitters primary ciliary dyskinesia 32
  • p.Gln186= Multiple submitters primary ciliary dyskinesia 32
  • p.Leu326= Multiple submitters primary ciliary dyskinesia 32
  • p.Pro104Arg Multiple submitters primary ciliary dyskinesia 32
  • c.116+12A>T Single submitter primary ciliary dyskinesia 32
  • c.116+7G>A Single submitter primary ciliary dyskinesia 32
  • c.117-19A>G Single submitter primary ciliary dyskinesia 32
  • c.117-297A>G Single submitter
  • c.204+18A>G Single submitter primary ciliary dyskinesia 32
  • c.204+204G>A Single submitter
  • c.204+20T>C Single submitter primary ciliary dyskinesia 32
  • c.205-11A>G Single submitter primary ciliary dyskinesia 32
  • c.205-5G>T Single submitter primary ciliary dyskinesia 32
  • c.205-8del Single submitter primary ciliary dyskinesia 32
  • c.346+10T>C Single submitter primary ciliary dyskinesia 32
  • c.346+14C>T Single submitter primary ciliary dyskinesia 32
  • c.346+17T>C Single submitter primary ciliary dyskinesia 32
  • c.347-11del Single submitter primary ciliary dyskinesia 32
  • c.347-16A>G Single submitter primary ciliary dyskinesia 32
  • c.347-314C>T Single submitter
  • c.697-11G>A Single submitter primary ciliary dyskinesia 32
  • c.697-12C>T Single submitter primary ciliary dyskinesia 32
  • c.697-229_697-228insTGAAA Single submitter
  • c.697-269T>C Single submitter
  • c.697-9del Single submitter primary ciliary dyskinesia 32
  • c.859+219T>G Single submitter
  • c.859+7A>G Single submitter primary ciliary dyskinesia 32
  • c.860-12C>A Single submitter primary ciliary dyskinesia 32
  • c.860-19A>G Single submitter primary ciliary dyskinesia 32
  • c.860-280G>A Single submitter
  • c.946+12T>C Single submitter primary ciliary dyskinesia 32
  • c.946+13A>G Single submitter primary ciliary dyskinesia 32
  • c.946+20A>T Single submitter primary ciliary dyskinesia 32
  • c.947-13T>C Single submitter
  • c.947-15C>T Single submitter primary ciliary dyskinesia 32
  • c.947-7T>C Single submitter primary ciliary dyskinesia 32
  • c.-103T>C Single submitter
  • c.-109G>A Single submitter primary ciliary dyskinesia 32
  • c.-10G>A Single submitter primary ciliary dyskinesia 32
  • c.-115G>C Single submitter primary ciliary dyskinesia 32
  • c.-151G>T Single submitter primary ciliary dyskinesia 32
  • c.-160T>C Single submitter primary ciliary dyskinesia 32
  • c.-16C>G Single submitter primary ciliary dyskinesia 32
  • c.-190G>A Single submitter primary ciliary dyskinesia 32
  • c.-196G>C Single submitter primary ciliary dyskinesia 32
  • c.-19A>G Single submitter primary ciliary dyskinesia 32
  • c.-201G>C Single submitter primary ciliary dyskinesia 32
  • c.-208C>T Single submitter primary ciliary dyskinesia 32
  • c.-211T>C Single submitter primary ciliary dyskinesia 32
  • c.-218C>T Single submitter primary ciliary dyskinesia 32
  • c.-223C>T Single submitter Inborn genetic diseases
  • c.-224C>G Single submitter Inborn genetic diseases
  • c.-232C>G Single submitter primary ciliary dyskinesia 32
  • c.-250C>T Single submitter primary ciliary dyskinesia 32
  • c.-259A>T Single submitter primary ciliary dyskinesia 32
  • c.-274G>A Single submitter primary ciliary dyskinesia 32
  • c.-275C>A Single submitter
  • c.-292T>C Single submitter primary ciliary dyskinesia 32
  • c.-304T>C Single submitter primary ciliary dyskinesia 32
  • c.-310A>C Single submitter primary ciliary dyskinesia 32
  • c.-313C>A Single submitter primary ciliary dyskinesia 32
  • c.-313C>G Single submitter primary ciliary dyskinesia 32
  • c.-343G>A Single submitter primary ciliary dyskinesia 32
  • c.-358G>C Single submitter primary ciliary dyskinesia 32
  • c.-360C>T Single submitter primary ciliary dyskinesia 32
  • c.-396C>T Single submitter primary ciliary dyskinesia 32
  • c.-418C>G Single submitter primary ciliary dyskinesia 32
  • c.-421G>A Single submitter primary ciliary dyskinesia 32
  • c.-433C>T Single submitter
  • c.-70C>T Single submitter primary ciliary dyskinesia 32
  • c.-76C>T Single submitter primary ciliary dyskinesia 32
  • p.Ala216= Single submitter primary ciliary dyskinesia 32
  • p.Ala24= Single submitter primary ciliary dyskinesia 32
  • p.Ala254= Single submitter primary ciliary dyskinesia 32
  • p.Ala259= Single submitter primary ciliary dyskinesia 32
  • p.Ala4= Single submitter
  • p.Arg125Cys Single submitter primary ciliary dyskinesia 32
  • p.Arg201Gln Single submitter Inborn genetic diseases ⚠
  • p.Asn247= Single submitter primary ciliary dyskinesia 32
  • p.Asn59= Single submitter primary ciliary dyskinesia 32
  • p.Asp112= Single submitter primary ciliary dyskinesia 32
  • p.Asp130= Single submitter primary ciliary dyskinesia 32
  • p.Asp265= Single submitter primary ciliary dyskinesia 32
  • p.Asp334Glu Single submitter Inborn genetic diseases
  • p.Asp403Asn Single submitter primary ciliary dyskinesia 32
  • p.Gln239= Single submitter primary ciliary dyskinesia 32
  • p.Gln260= Single submitter primary ciliary dyskinesia 32
  • p.Gln96= Single submitter primary ciliary dyskinesia 32
  • p.Glu194= Single submitter
  • p.Glu206= Single submitter primary ciliary dyskinesia 32
  • p.Glu222= Single submitter primary ciliary dyskinesia 32
  • p.Glu370= Single submitter primary ciliary dyskinesia 32
  • p.Glu414= Single submitter primary ciliary dyskinesia 32
  • p.Glu414Lys Single submitter Inborn genetic diseases
  • p.Glu95= Single submitter primary ciliary dyskinesia 32
  • p.Gly181= Single submitter primary ciliary dyskinesia 32
  • p.Gly346= Single submitter primary ciliary dyskinesia 32
  • p.Gly349= Single submitter primary ciliary dyskinesia 32
  • p.Gly401= Single submitter primary ciliary dyskinesia 32
  • p.Ile288= Single submitter primary ciliary dyskinesia 32
  • p.Leu139= Single submitter primary ciliary dyskinesia 32
  • p.Leu161= Single submitter primary ciliary dyskinesia 32
  • p.Leu197= Single submitter primary ciliary dyskinesia 32
  • p.Leu263= Single submitter primary ciliary dyskinesia 32
  • p.Leu69= Single submitter primary ciliary dyskinesia 32
  • p.Pro102= Single submitter
  • p.Pro22= Single submitter primary ciliary dyskinesia 32
  • p.Pro294= Single submitter primary ciliary dyskinesia 32
  • p.Ser277Gly Single submitter Inborn genetic diseases
  • p.Thr249= Single submitter primary ciliary dyskinesia 32
  • p.Thr382= Single submitter primary ciliary dyskinesia 32
  • p.Thr406= Single submitter primary ciliary dyskinesia 32
  • p.Tyr207= Single submitter primary ciliary dyskinesia 32
  • p.Tyr383= Single submitter primary ciliary dyskinesia 32
  • c.-292T>A No assertion criteria RSPH3-related disorder
  • p.Ser411= No assertion criteria RSPH3-related disorder

Uncertain significance 159