SFTPC — 209 ClinVar variants

All ClinVar germline SFTPC variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 85 flagged for review →

14 Pathogenic · 3 Pathogenic/Likely pathogenic · 13 Likely pathogenic · 18 Conflicting · 25 Benign · 16 Benign/Likely benign · 38 Likely benign · 82 Uncertain significance

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

⚑ Evidence disagreements 85

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 2

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

Predictors agree, ClinVar conflicts 9

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

Predictors lean, ClinVar uncertain 41

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

Predictors split 33

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

All SFTPC variants

Pathogenic 14

  • c.325-1G>A Single submitter
  • c.325-1G>C Single submitter
  • c.435+1G>A Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Arg161fs Single submitter hereditary pulmonary alveolar proteinosis
  • p.Asp105Tyr Single submitter
  • p.Cys121Phe Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Glu135fs Single submitter
  • p.Thr138fs Single submitter hereditary pulmonary alveolar proteinosis
  • c.325-2A>C No assertion criteria SFTPC-related disorder
  • c.435+1G>T No assertion criteria surfactant metabolism dysfunction, pulmonary, 2
  • p.Ala116Asp No assertion criteria surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Glu66Lys No assertion criteria surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Leu182Gln No assertion criteria surfactant metabolism dysfunction, pulmonary, 2
  • p.Leu188Pro No assertion criteria surfactant metabolism dysfunction, pulmonary, 2 ⚠

Pathogenic/Likely pathogenic 3

  • c.435+2T>C Multiple submitters SFTPC-related disorder
  • p.Ile73Thr Multiple submitters hereditary pulmonary alveolar proteinosis ⚠
  • p.Leu110Pro Multiple submitters hereditary pulmonary alveolar proteinosis

Likely pathogenic 13

  • p.Leu55Phe Multiple submitters SFTPC-related disorder ⚠
  • p.Ala112Pro Single submitter hereditary pulmonary alveolar proteinosis
  • p.Ala149fs Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Arg161Ter Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Asp105Gly Single submitter
  • p.Asp105Val Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Gln145= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Glu159fs Single submitter hereditary pulmonary alveolar proteinosis
  • p.His142fs Single submitter
  • p.His64Gln Single submitter surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Ser133Arg Single submitter Inborn genetic diseases
  • p.Tyr106His Single submitter interstitial lung disease 2 ⚠
  • p.Tyr113His Single submitter hereditary pulmonary alveolar proteinosis

Conflicting classifications of pathogenicity 18

  • c.201+3G>A Single submitter
  • c.324+5G>A Single submitter hereditary pulmonary alveolar proteinosis
  • p.Ala149Pro Single submitter surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Ala53Thr Single submitter interstitial lung disease 2 ⚠
  • p.Arg161Gln Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Arg81His Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Cys183Gly Single submitter ⚠
  • p.Cys183Tyr Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Gly169Arg Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.His59Arg Single submitter surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Ile191Leu Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Leu175Val Single submitter interstitial lung disease 2 ⚠
  • p.Lys140Ter Single submitter interstitial lung disease 2
  • p.Pro14= Single submitter interstitial lung disease 2
  • p.Thr181Asn Single submitter SFTPC-related disorder ⚠
  • p.Val39Leu Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Val48Met Single submitter surfactant metabolism dysfunction, pulmonary, 2 ⚠
  • p.Val68Phe Single submitter hereditary pulmonary alveolar proteinosis ⚠

Benign 25

  • c.201+49C>A Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.42+35G>A Multiple submitters
  • c.43-21T>C Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.43-87C>T Multiple submitters
  • c.435+148C>T Multiple submitters
  • c.435+71G>A Multiple submitters
  • c.436-125C>T Multiple submitters
  • c.436-26C>G Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.-53-218G>A Multiple submitters
  • c.*174G>A Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.*19-39dup Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • p.Ser180Asn Multiple submitters hereditary pulmonary alveolar proteinosis
  • c.18+12G>A Single submitter interstitial lung disease 2
  • c.18+13G>A Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • c.201+19A>G Single submitter hereditary pulmonary alveolar proteinosis
  • c.42+15G>A Single submitter hereditary pulmonary alveolar proteinosis
  • c.42+37G>A Single submitter
  • c.43-194G>A Single submitter
  • c.43-247A>G Single submitter
  • c.43-275G>A Single submitter
  • c.-91C>T Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • c.-92C>G Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Arg21Gln Single submitter hereditary pulmonary alveolar proteinosis
  • p.His32Tyr Single submitter hereditary pulmonary alveolar proteinosis
  • p.Leu101= Single submitter interstitial lung disease 2

Benign/Likely benign 16

  • c.201+14G>A Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.43-7G>A Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.435+12T>G Multiple submitters hereditary pulmonary alveolar proteinosis
  • c.435+15G>A Multiple submitters hereditary pulmonary alveolar proteinosis
  • c.-134G>C Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.*123G>A Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.*12T>A Multiple submitters hereditary pulmonary alveolar proteinosis
  • c.*173C>T Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • c.*36A>G Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • p.Arg23Gln Multiple submitters interstitial lung disease 2
  • p.Gly184= Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • p.Ile96= Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • p.Pro117= Multiple submitters hereditary pulmonary alveolar proteinosis
  • p.Pro76= Multiple submitters interstitial lung disease 2
  • p.Thr138Asn Multiple submitters hereditary pulmonary alveolar proteinosis
  • p.Val8= Multiple submitters surfactant metabolism dysfunction, pulmonary, 2

Likely benign 38

  • c.201+108A>G Multiple submitters
  • c.43-8C>T Multiple submitters
  • c.-67C>T Multiple submitters surfactant metabolism dysfunction, pulmonary, 2
  • p.Ile38= Multiple submitters hereditary pulmonary alveolar proteinosis
  • p.Pro172= Multiple submitters hereditary pulmonary alveolar proteinosis
  • p.Thr65= Multiple submitters hereditary pulmonary alveolar proteinosis
  • c.202-17C>G Single submitter
  • c.202-6C>T Single submitter
  • c.42+14C>T Single submitter
  • c.42+17G>A Single submitter
  • c.42+20T>G Single submitter
  • c.43-21_43-18del Single submitter
  • c.435+1GT[5] Single submitter hereditary pulmonary alveolar proteinosis
  • c.435+1GT[7] Single submitter
  • c.436-11G>A Single submitter hereditary pulmonary alveolar proteinosis
  • c.436-5T>C Single submitter hereditary pulmonary alveolar proteinosis
  • c.436-6C>T Single submitter hereditary pulmonary alveolar proteinosis
  • c.-18C>T Single submitter
  • c.*171G>A Single submitter interstitial lung disease 2
  • p.Ala158Thr Single submitter hereditary pulmonary alveolar proteinosis
  • p.Ala18Thr Single submitter hereditary pulmonary alveolar proteinosis
  • p.Ala75= Single submitter
  • p.Gly118Arg Single submitter hereditary pulmonary alveolar proteinosis ⚠
  • p.Leu54= Single submitter
  • p.Leu88= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Leu88Val Single submitter hereditary pulmonary alveolar proteinosis
  • p.Phe174= Single submitter
  • p.Pro128= Single submitter
  • p.Pro13= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Ser17= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Thr138= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Thr152= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Val103= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Val31= Single submitter
  • p.Val44_Leu45insValVal Single submitter surfactant metabolism dysfunction, pulmonary, 2
  • p.Val47= Single submitter hereditary pulmonary alveolar proteinosis
  • p.Val48= Single submitter hereditary pulmonary alveolar proteinosis
  • c.-10C>G No assertion criteria SFTPC-related disorder

Uncertain significance 82