ANKH — 515 ClinVar variants

All ClinVar germline ANKH variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 136 flagged for review →

7 Pathogenic · 3 Pathogenic/Likely pathogenic · 4 Likely pathogenic · 19 Conflicting · 104 Benign · 21 Benign/Likely benign · 122 Likely benign · 235 Uncertain significance

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

⚑ Evidence disagreements 136

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 2

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

Predictors lean, ClinVar uncertain 78

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

Predictors split 54

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

All ANKH variants

Pathogenic 7

  • p.Phe377del Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Leu421fs Single submitter craniometaphyseal dysplasia, autosomal dominant
  • p.Cys339Arg No assertion criteria craniometaphyseal dysplasia, autosomal dominant
  • p.Glu490del No assertion criteria CHONDROCALCINOSIS 2, SPORADIC
  • p.Leu334Arg No assertion criteria craniometaphyseal dysplasia, autosomal dominant
  • p.Leu391Pro No assertion criteria craniometaphyseal dysplasia, autosomal dominant
  • p.Met48Thr No assertion criteria chondrocalcinosis 2 ⚠

Pathogenic/Likely pathogenic 3

  • c.1142-4A>G Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Ser375del Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Pro5Thr No assertion criteria ANKH-related disorder ⚠

Likely pathogenic 4

  • c.314-2A>T Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.-11C>T Single submitter Rare epilepsy
  • p.Gly389Arg Single submitter chondrocalcinosis 2
  • p.Pro5Leu Single submitter chondrocalcinosis 2

Conflicting classifications of pathogenicity 19

Benign 104

  • c.1011+15T>G Multiple submitters chondrocalcinosis 2
  • c.1011+267G>A Multiple submitters
  • c.1265+6T>C Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.1365+13C>T Multiple submitters chondrocalcinosis 2
  • c.1366-79G>A Multiple submitters
  • c.313+278C>T Multiple submitters
  • c.313+9G>A Multiple submitters chondrocalcinosis 2
  • c.517-240A>C Multiple submitters
  • c.517-51G>A Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.517-52A>G Multiple submitters
  • c.687+123C>A Multiple submitters
  • c.688-136A>G Multiple submitters
  • c.688-14G>A Multiple submitters chondrocalcinosis 2
  • c.915+165C>T Multiple submitters
  • c.916-271A>G Multiple submitters
  • c.-4G>A Multiple submitters chondrocalcinosis 2
  • c.-80GTCGCCCC[1] Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*1271A>C Multiple submitters chondrocalcinosis 2
  • c.*2107A>G Multiple submitters chondrocalcinosis 2
  • c.*2699G>C Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*283C>T Multiple submitters chondrocalcinosis 2
  • c.*31A>G Multiple submitters chondrocalcinosis 2
  • c.*3420T>C Multiple submitters chondrocalcinosis 2
  • c.*3628T>C Multiple submitters chondrocalcinosis 2
  • c.*3706G>A Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*3928C>T Multiple submitters chondrocalcinosis 2
  • c.*4219T>C Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*4428T>C Multiple submitters chondrocalcinosis 2
  • c.*510C>T Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*561C>T Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.*5641A>G Multiple submitters chondrocalcinosis 2
  • c.*580C>T Multiple submitters chondrocalcinosis 2
  • c.*831T>C Multiple submitters chondrocalcinosis 2
  • c.*840G>C Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Ala321= Multiple submitters chondrocalcinosis 2
  • p.Ala86= Multiple submitters chondrocalcinosis 2
  • p.Ala98= Multiple submitters chondrocalcinosis 2
  • p.His424= Multiple submitters chondrocalcinosis 2
  • p.Leu135= Multiple submitters chondrocalcinosis 2
  • c.1141+190TATT[5] Single submitter
  • c.1365+274T>A Single submitter
  • c.1366-240T>C Single submitter
  • c.516+199T>G Single submitter
  • c.688-155A>G Single submitter
  • c.688-186C>A Single submitter
  • c.822+153G>A Single submitter
  • c.822+323A>C Single submitter
  • c.823-198A>G Single submitter
  • c.823-207A>C Single submitter
  • c.823-212G>A Single submitter
  • c.823-225A>G Single submitter
  • c.823-279T>C Single submitter
  • c.96+93C>T Single submitter
  • c.97-13dup Single submitter
  • c.-252C>T Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*1008C>G Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*1192G>C Single submitter chondrocalcinosis 2
  • c.*11G>A Single submitter chondrocalcinosis 2
  • c.*1711C>A Single submitter chondrocalcinosis 2
  • c.*1814G>A Single submitter chondrocalcinosis 2
  • c.*1988C>G Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*2119C>T Single submitter chondrocalcinosis 2
  • c.*2200T>C Single submitter chondrocalcinosis 2
  • c.*2262G>T Single submitter chondrocalcinosis 2
  • c.*2392G>T Single submitter chondrocalcinosis 2
  • c.*2511C>T Single submitter chondrocalcinosis 2
  • c.*2543G>C Single submitter chondrocalcinosis 2
  • c.*2714T>C Single submitter chondrocalcinosis 2
  • c.*302_*321dup Single submitter
  • c.*349A>G Single submitter chondrocalcinosis 2
  • c.*3543G>T Single submitter chondrocalcinosis 2
  • c.*3627G>A Single submitter chondrocalcinosis 2
  • c.*3698T>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*3899T>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*3900T>C Single submitter chondrocalcinosis 2
  • c.*4182T>G Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4244T>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4251T>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4268C>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*433G>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4351C>T Single submitter chondrocalcinosis 2
  • c.*4513G>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4624A>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*4672G>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*5034del Single submitter
  • c.*52G>A Single submitter chondrocalcinosis 2
  • c.*5459C>T Single submitter chondrocalcinosis 2
  • c.*5518C>T Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*5662C>T Single submitter chondrocalcinosis 2
  • c.*5759G>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*5768T>C Single submitter chondrocalcinosis 2
  • c.*5895C>A Single submitter chondrocalcinosis 2
  • c.*6163A>G Single submitter chondrocalcinosis 2
  • c.*6226G>A Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*6386G>C Single submitter chondrocalcinosis 2
  • c.*706C>T Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*712G>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*724A>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*819T>G Single submitter chondrocalcinosis 2
  • c.*914A>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • c.*925T>C Single submitter craniometaphyseal dysplasia, autosomal dominant
  • p.Ala385= Single submitter
  • p.Gly389= Single submitter
  • p.Leu228= Single submitter

Benign/Likely benign 21

  • c.1012-11T>G Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.1266-6C>T Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.1365+9G>A Multiple submitters chondrocalcinosis 2
  • c.314-13C>T Multiple submitters chondrocalcinosis 2
  • c.432+13G>A Multiple submitters chondrocalcinosis 2
  • c.517-18C>G Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.822+55G>T Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • c.915+14C>T Multiple submitters chondrocalcinosis 2
  • c.97-13del Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Ala413Thr Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Ala426= Multiple submitters chondrocalcinosis 2
  • p.Arg187Gln Multiple submitters chondrocalcinosis 2
  • p.Glu227= Multiple submitters chondrocalcinosis 2
  • p.Gly94= Multiple submitters chondrocalcinosis 2
  • p.Ile446= Multiple submitters chondrocalcinosis 2
  • p.Ile96= Multiple submitters chondrocalcinosis 2
  • p.Leu34= Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Phe329= Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Ser123= Multiple submitters craniometaphyseal dysplasia, autosomal dominant
  • p.Val444= Multiple submitters chondrocalcinosis 2
  • p.Val485Met Multiple submitters chondrocalcinosis 2 ⚠

Likely benign 122

Uncertain significance 235