COL10A1 — 537 ClinVar variants

All ClinVar germline COL10A1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 315 flagged for review →

27 Pathogenic · 6 Pathogenic/Likely pathogenic · 36 Likely pathogenic · 28 Conflicting · 29 Benign · 15 Benign/Likely benign · 74 Likely benign · 322 Uncertain significance

Full COL10A1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 315

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 3

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

Predictors agree, ClinVar conflicts 17

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

Predictors lean, ClinVar uncertain 136

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

Predictors split 159

The independent predictors disagree with each other — read with care. · showing the 150 best-reviewed of 159

All COL10A1 variants

Pathogenic 27

  • p.Tyr663Ter Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Cys591Phe Single submitter Schmid metaphyseal chondrodysplasia
  • p.Gln649Ter Single submitter Schmid metaphyseal chondrodysplasia
  • p.Gly18Arg Single submitter Schmid metaphyseal chondrodysplasia ⚠
  • p.Gly18Glu Single submitter Schmid metaphyseal chondrodysplasia ⚠
  • p.Gly595Glu Single submitter Schmid metaphyseal chondrodysplasia
  • p.Gly618fs Single submitter Schmid metaphyseal chondrodysplasia
  • p.Gly618Val Single submitter ⚠
  • p.Leu575fs Single submitter
  • p.Leu633fs Single submitter
  • p.Ser639fs Single submitter
  • p.Trp611Ter Single submitter Schmid metaphyseal chondrodysplasia
  • p.Trp651Arg Single submitter Schmid metaphyseal chondrodysplasia
  • p.Trp651fs Single submitter Schmid metaphyseal chondrodysplasia
  • p.Tyr598Asp Single submitter Schmid metaphyseal chondrodysplasia
  • p.Tyr615Ter Single submitter
  • p.Tyr623fs Single submitter Schmid metaphyseal chondrodysplasia
  • p.Tyr623Ter Single submitter
  • p.Tyr632Ter Single submitter Schmid metaphyseal chondrodysplasia
  • p.Tyr632Ter Single submitter
  • p.Asp634fs No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Pro433fs No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Pro620fs No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Pro620fs No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Tyr597Cys No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Tyr628Ter No assertion criteria Schmid metaphyseal chondrodysplasia
  • p.Val621fs No assertion criteria Schmid metaphyseal chondrodysplasia

Pathogenic/Likely pathogenic 6

  • p.Arg71Ter Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Gln653Ter Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Ser664_Ser665insTer Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Ser671Pro Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Thr608fs Multiple submitters
  • p.Tyr597His Multiple submitters Schmid metaphyseal chondrodysplasia ⚠

Likely pathogenic 36

Conflicting classifications of pathogenicity 28

Benign 29

  • c.154+13G>C Multiple submitters Schmid metaphyseal chondrodysplasia
  • c.*6_*7insCCC Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Gln91= Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Gly209Ser Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Gly308= Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Gly383Arg Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Pro394Arg Multiple submitters Schmid metaphyseal chondrodysplasia ⚠
  • p.Val603= Multiple submitters Schmid metaphyseal chondrodysplasia
  • c.154+104C>T Single submitter
  • c.154+6T>C Single submitter
  • c.-15-56del Single submitter
  • c.*1025C>T Single submitter Schmid metaphyseal chondrodysplasia
  • c.*1026G>A Single submitter Schmid metaphyseal chondrodysplasia
  • c.*1042A>G Single submitter Schmid metaphyseal chondrodysplasia
  • c.*1106G>A Single submitter Schmid metaphyseal chondrodysplasia
  • c.*13del Single submitter
  • c.*151C>A Single submitter Schmid metaphyseal chondrodysplasia
  • c.*157A>G Single submitter Schmid metaphyseal chondrodysplasia
  • c.*196T>C Single submitter Schmid metaphyseal chondrodysplasia
  • c.*315A>T Single submitter Schmid metaphyseal chondrodysplasia
  • c.*317T>A Single submitter Schmid metaphyseal chondrodysplasia
  • c.*416G>A Single submitter Schmid metaphyseal chondrodysplasia
  • c.*653T>C Single submitter Schmid metaphyseal chondrodysplasia
  • c.*790T>G Single submitter Schmid metaphyseal chondrodysplasia
  • p.Gly455Val Single submitter
  • p.Met1Thr Single submitter
  • p.Pro366= Single submitter
  • p.Ser50Gly Single submitter
  • p.Thr537Asn Single submitter

Benign/Likely benign 15

  • c.*246T>C Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Arg198His Multiple submitters Schmid metaphyseal chondrodysplasia ⚠
  • p.Arg258Gln Multiple submitters Inborn genetic diseases ⚠
  • p.Asn617= Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Asp128Asn Multiple submitters Schmid metaphyseal chondrodysplasia ⚠
  • p.Gly109= Multiple submitters
  • p.Gly545Arg Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.His602= Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Leu8Trp Multiple submitters Schmid metaphyseal chondrodysplasia ⚠
  • p.Met27Thr Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Met680Ile Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Ser50Arg Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Thr450= Multiple submitters Schmid metaphyseal chondrodysplasia
  • p.Thr489= Multiple submitters
  • p.Tyr625= Multiple submitters Schmid metaphyseal chondrodysplasia

Likely benign 74

Uncertain significance 322

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