CHKB — 272 ClinVar variants

All ClinVar germline CHKB variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 109 flagged for review →

14 Pathogenic · 1 Pathogenic/Likely pathogenic · 6 Likely pathogenic · 12 Conflicting · 22 Benign · 2 Benign/Likely benign · 98 Likely benign · 117 Uncertain significance

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

⚑ Evidence disagreements 109

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 4

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

Predictors lean, ClinVar uncertain 49

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

Predictors split 56

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

All CHKB variants

Pathogenic 14

  • p.Arg63Ter Single submitter megaconial type congenital muscular dystrophy
  • p.Asn241Ser Single submitter megaconial type congenital muscular dystrophy
  • p.Gln198fs Single submitter megaconial type congenital muscular dystrophy
  • p.Glu230fs Single submitter megaconial type congenital muscular dystrophy
  • p.Glu335Ter Single submitter megaconial type congenital muscular dystrophy
  • p.Leu228fs Single submitter Inborn genetic diseases
  • p.Met179fs Single submitter megaconial type congenital muscular dystrophy
  • p.Phe189fs Single submitter megaconial type congenital muscular dystrophy
  • p.Thr155fs Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr270fs Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr270Ter Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr72Ter Single submitter megaconial type congenital muscular dystrophy
  • c.677+1G>A No assertion criteria megaconial type congenital muscular dystrophy
  • p.Gln308Ter No assertion criteria megaconial type congenital muscular dystrophy

Pathogenic/Likely pathogenic 1

  • p.Gln51Ter Multiple submitters megaconial type congenital muscular dystrophy

Likely pathogenic 6

  • c.678-2A>G Single submitter megaconial type congenital muscular dystrophy
  • c.736+2T>C Single submitter
  • p.Gln156fs Single submitter
  • p.Trp356Ter Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr50Ter Single submitter megaconial type congenital muscular dystrophy
  • p.Cys282fs No assertion criteria megaconial type congenital muscular dystrophy

Conflicting classifications of pathogenicity 12

  • c.1031+12G>A Single submitter megaconial type congenital muscular dystrophy
  • c.1114-6C>T Single submitter megaconial type congenital muscular dystrophy
  • c.224+5G>C Single submitter megaconial type congenital muscular dystrophy
  • c.447+12G>A Single submitter megaconial type congenital muscular dystrophy
  • p.Ala13Val Single submitter Inborn genetic diseases ⚠
  • p.Arg194Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Asn224His Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gln328Arg Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu46Asp Single submitter Inborn genetic diseases ⚠
  • p.Pro88Leu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Thr301Ile Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Tyr303Cys Single submitter Inborn genetic diseases ⚠

Benign 22

Benign/Likely benign 2

  • c.582-13_582-11del Multiple submitters megaconial type congenital muscular dystrophy
  • p.Phe83= Multiple submitters megaconial type congenital muscular dystrophy

Likely benign 98

  • c.1113+81G>A Multiple submitters
  • c.334-188C>G Multiple submitters
  • c.581+138C>G Multiple submitters
  • c.581+8A>T Multiple submitters megaconial type congenital muscular dystrophy
  • c.737-16C>T Multiple submitters megaconial type congenital muscular dystrophy
  • p.Ala172= Multiple submitters megaconial type congenital muscular dystrophy
  • p.Ile199= Multiple submitters megaconial type congenital muscular dystrophy
  • p.Pro208= Multiple submitters
  • p.Tyr216= Multiple submitters megaconial type congenital muscular dystrophy
  • c.1031+11A>C Single submitter megaconial type congenital muscular dystrophy
  • c.1031+15G>A Single submitter
  • c.1031+19G>A Single submitter megaconial type congenital muscular dystrophy
  • c.1031+20G>A Single submitter megaconial type congenital muscular dystrophy
  • c.1032-11C>T Single submitter megaconial type congenital muscular dystrophy
  • c.1032-15C>G Single submitter megaconial type congenital muscular dystrophy
  • c.1032-20T>C Single submitter megaconial type congenital muscular dystrophy
  • c.224+11A>G Single submitter megaconial type congenital muscular dystrophy
  • c.333+17C>T Single submitter megaconial type congenital muscular dystrophy
  • c.333+18G>A Single submitter megaconial type congenital muscular dystrophy
  • c.333+9_333+10del Single submitter megaconial type congenital muscular dystrophy
  • c.334-16G>A Single submitter megaconial type congenital muscular dystrophy
  • c.334-18C>T Single submitter megaconial type congenital muscular dystrophy
  • c.334-31_334-18del Single submitter megaconial type congenital muscular dystrophy
  • c.447+20C>G Single submitter megaconial type congenital muscular dystrophy
  • c.581+20_581+21del Single submitter megaconial type congenital muscular dystrophy
  • c.581+20A>G Single submitter megaconial type congenital muscular dystrophy
  • c.581+234G>A Single submitter
  • c.581+7C>G Single submitter megaconial type congenital muscular dystrophy
  • c.582-12T>C Single submitter megaconial type congenital muscular dystrophy
  • c.582-13C>T Single submitter megaconial type congenital muscular dystrophy
  • c.582-15T>C Single submitter megaconial type congenital muscular dystrophy
  • c.582-49G>A Single submitter
  • c.677+18A>G Single submitter megaconial type congenital muscular dystrophy
  • c.678-16T>A Single submitter megaconial type congenital muscular dystrophy
  • c.678-6C>T Single submitter megaconial type congenital muscular dystrophy
  • c.736+11G>A Single submitter megaconial type congenital muscular dystrophy
  • c.736+18A>T Single submitter megaconial type congenital muscular dystrophy
  • c.737-14C>T Single submitter megaconial type congenital muscular dystrophy
  • c.737-5C>T Single submitter megaconial type congenital muscular dystrophy
  • c.737-6C>T Single submitter megaconial type congenital muscular dystrophy
  • c.818+19C>T Single submitter megaconial type congenital muscular dystrophy
  • c.818+7C>T Single submitter megaconial type congenital muscular dystrophy
  • c.819-18T>G Single submitter megaconial type congenital muscular dystrophy
  • c.819-9T>C Single submitter megaconial type congenital muscular dystrophy
  • c.927+8G>A Single submitter megaconial type congenital muscular dystrophy
  • c.927+9G>C Single submitter megaconial type congenital muscular dystrophy
  • c.928-11A>G Single submitter megaconial type congenital muscular dystrophy
  • c.928-16T>C Single submitter megaconial type congenital muscular dystrophy
  • c.928-19T>A Single submitter megaconial type congenital muscular dystrophy
  • c.928-20C>A Single submitter megaconial type congenital muscular dystrophy
  • c.928-5C>T Single submitter megaconial type congenital muscular dystrophy
  • c.928-7A>T Single submitter megaconial type congenital muscular dystrophy
  • c.928-8G>A Single submitter megaconial type congenital muscular dystrophy
  • p.Ala168= Single submitter megaconial type congenital muscular dystrophy
  • p.Ala2= Single submitter megaconial type congenital muscular dystrophy
  • p.Ala7= Single submitter megaconial type congenital muscular dystrophy
  • p.Ala9= Single submitter megaconial type congenital muscular dystrophy
  • p.Arg129= Single submitter megaconial type congenital muscular dystrophy
  • p.Arg151= Single submitter megaconial type congenital muscular dystrophy
  • p.Arg48= Single submitter megaconial type congenital muscular dystrophy
  • p.Arg62= Single submitter megaconial type congenital muscular dystrophy
  • p.Asp21= Single submitter megaconial type congenital muscular dystrophy
  • p.Cys53= Single submitter megaconial type congenital muscular dystrophy
  • p.Cys85= Single submitter megaconial type congenital muscular dystrophy
  • p.Gln198= Single submitter megaconial type congenital muscular dystrophy
  • p.Gln360= Single submitter megaconial type congenital muscular dystrophy
  • p.Gln51= Single submitter megaconial type congenital muscular dystrophy
  • p.Gln65= Single submitter megaconial type congenital muscular dystrophy
  • p.Glu330= Single submitter megaconial type congenital muscular dystrophy
  • p.Glu55= Single submitter megaconial type congenital muscular dystrophy
  • p.Glu68= Single submitter megaconial type congenital muscular dystrophy
  • p.Gly142= Single submitter megaconial type congenital muscular dystrophy
  • p.Gly278= Single submitter megaconial type congenital muscular dystrophy
  • p.Gly77= Single submitter megaconial type congenital muscular dystrophy
  • p.Ile148= Single submitter megaconial type congenital muscular dystrophy
  • p.Ile313= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu102= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu105= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu144= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu207= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu229= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu23= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu251= Single submitter megaconial type congenital muscular dystrophy
  • p.Leu69= Single submitter
  • p.Leu82= Single submitter megaconial type congenital muscular dystrophy
  • p.Lys27= Single submitter megaconial type congenital muscular dystrophy
  • p.Pro294= Single submitter megaconial type congenital muscular dystrophy
  • p.Pro304= Single submitter megaconial type congenital muscular dystrophy
  • p.Ser120= Single submitter megaconial type congenital muscular dystrophy
  • p.Ser234= Single submitter megaconial type congenital muscular dystrophy
  • p.Ser362= Single submitter megaconial type congenital muscular dystrophy
  • p.Ser40= Single submitter megaconial type congenital muscular dystrophy
  • p.Thr305= Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr267= Single submitter megaconial type congenital muscular dystrophy
  • p.Tyr370= Single submitter megaconial type congenital muscular dystrophy
  • p.Val14= Single submitter megaconial type congenital muscular dystrophy
  • p.Val391= Single submitter megaconial type congenital muscular dystrophy
  • p.Val74= Single submitter megaconial type congenital muscular dystrophy

Uncertain significance 117

  • c.*208T>G Multiple submitters megaconial type congenital muscular dystrophy
  • p.Ala361Val Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Arg344Trp Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Arg62Cys Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Gln309Glu Multiple submitters Inborn genetic diseases ⚠
  • p.Glu214Asp Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Glu336Lys Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Glu97Asp Multiple submitters Inborn genetic diseases ⚠
  • p.Gly12Glu Multiple submitters Inborn genetic diseases ⚠
  • p.Gly190Glu Multiple submitters Inborn genetic diseases ⚠
  • p.Gly386Glu Multiple submitters Inborn genetic diseases ⚠
  • p.His315Arg Multiple submitters Inborn genetic diseases ⚠
  • p.Leu334Pro Multiple submitters Inborn genetic diseases ⚠
  • p.Leu371Met Multiple submitters Inborn genetic diseases ⚠
  • p.Lys27Arg Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Lys321Glu Multiple submitters Inborn genetic diseases ⚠
  • p.Met177Lys Multiple submitters Inborn genetic diseases ⚠
  • p.Pro66Thr Multiple submitters Inborn genetic diseases ⚠
  • p.Pro92Leu Multiple submitters Inborn genetic diseases ⚠
  • p.Ser150Arg Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Ser217Gly Multiple submitters Inborn genetic diseases ⚠
  • p.Ser231Cys Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Tyr72His Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • p.Val237Ile Multiple submitters megaconial type congenital muscular dystrophy ⚠
  • c.1113+4A>T Single submitter megaconial type congenital muscular dystrophy
  • c.1114-14G>A Single submitter megaconial type congenital muscular dystrophy
  • c.1114-1G>A Single submitter megaconial type congenital muscular dystrophy
  • c.1114-3T>G Single submitter megaconial type congenital muscular dystrophy
  • c.447+4C>T Single submitter CHKB-related disorder
  • c.677+3G>A Single submitter megaconial type congenital muscular dystrophy
  • c.736+5_736+7del Single submitter megaconial type congenital muscular dystrophy
  • c.819-16_819-7del Single submitter megaconial type congenital muscular dystrophy
  • c.-94G>A Single submitter megaconial type congenital muscular dystrophy
  • p.Ala165Pro Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ala298Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ala318Val Single submitter Inborn genetic diseases ⚠
  • p.Ala374Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ala45Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ala49Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg129Trp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg151Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg226Ser Single submitter ⚠
  • p.Arg35Pro Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg36Trp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg377Trp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg54Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Arg70Thr Single submitter Inborn genetic diseases ⚠
  • p.Arg99_Arg104del Single submitter megaconial type congenital muscular dystrophy
  • p.Asn224Ser Single submitter Inborn genetic diseases ⚠
  • p.Asp287Ala Single submitter CHKB-Related Congenital Muscular Dystrophy (CHKB-CMD) ⚠
  • p.Asp44Ala Single submitter Inborn genetic diseases ⚠
  • p.Cys28Tyr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gln146Arg Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gln156= Single submitter megaconial type congenital muscular dystrophy
  • p.Gln331Glu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gln383Glu Single submitter Inborn genetic diseases ⚠
  • p.Gln387Pro Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu100Asp Single submitter Inborn genetic diseases ⚠
  • p.Glu141Asp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu230Lys Single submitter Inborn genetic diseases ⚠
  • p.Glu283Lys Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu291Lys Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu324Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Glu336del Single submitter megaconial type congenital muscular dystrophy
  • p.Glu46Ala Single submitter Inborn genetic diseases ⚠
  • p.Glu55Gly Single submitter ⚠
  • p.Gly12Arg Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gly137Arg Single submitter Inborn genetic diseases ⚠
  • p.Gly142Ser Single submitter Inborn genetic diseases ⚠
  • p.Gly176= Single submitter megaconial type congenital muscular dystrophy
  • p.Gly274Asp Single submitter ⚠
  • p.Gly59Ala Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Gly76Glu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.His186Tyr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.His290Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ile125Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ile243Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu262Arg Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu317Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu338Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu57Trp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu82Val Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Leu91Gln Single submitter Inborn genetic diseases ⚠
  • p.Lys20Gln Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Lys27Met Single submitter Inborn genetic diseases ⚠
  • p.Met122Thr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Met171Thr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Met1Leu Single submitter megaconial type congenital muscular dystrophy
  • p.Met261Ile Single submitter Inborn genetic diseases ⚠
  • p.Met363Thr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Phe139Leu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Phe238Leu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Phe351Ser Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Phe352_Trp353delinsLeu Single submitter megaconial type congenital muscular dystrophy
  • p.Phe378Tyr Single submitter Inborn genetic diseases ⚠
  • p.Pro161Leu Single submitter Inborn genetic diseases ⚠
  • p.Pro233Ser Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Pro294Ala Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Pro304Thr Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Pro88Ser Single submitter Inborn genetic diseases ⚠
  • p.Pro92Arg Single submitter Inborn genetic diseases ⚠
  • p.Pro92Ser Single submitter Inborn genetic diseases ⚠
  • p.Ser120Asn Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ser362Phe Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ser39Leu Single submitter Inborn genetic diseases ⚠
  • p.Ser40Leu Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Ser40Trp Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Thr169Met Single submitter ⚠
  • p.Thr205Ala Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Thr6Ala Single submitter Inborn genetic diseases ⚠
  • p.Thr6Ile Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Tyr272Cys Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Val101Ala Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Val117Leu Single submitter Seizure ⚠
  • p.Val162Ala Single submitter megaconial type congenital muscular dystrophy ⚠
  • p.Val162Met Single submitter Inborn genetic diseases ⚠
  • p.Val71Gly Single submitter megaconial type congenital muscular dystrophy ⚠