PRICKLE1 — 513 ClinVar variants

All ClinVar germline PRICKLE1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 265 flagged for review →

1 Pathogenic · 12 Conflicting · 26 Benign · 10 Benign/Likely benign · 160 Likely benign · 304 Uncertain significance

Full PRICKLE1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 265

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 7

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

Predictors lean, ClinVar uncertain 203

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 203

Predictors split 55

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

All PRICKLE1 variants

Pathogenic 1

  • p.Tyr472His No assertion criteria epilepsy, progressive myoclonic, 1B ⚠

Conflicting classifications of pathogenicity 12

  • c.1639+3A>G Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ala145= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asn662Ser Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Gln630Glu Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Glu454Lys Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Leu754= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro38= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro38Leu Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Pro802Ser Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Ser487= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser739Phe Single submitter epilepsy, progressive myoclonic, 1B ⚠
  • p.Thr691Ala Single submitter epilepsy, progressive myoclonic, 1B ⚠

Benign 26

Benign/Likely benign 10

  • c.588+10dup Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.775+20G>A Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ala248= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Lys623= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Pro746Ser Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ser549= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Tyr59= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Tyr731= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Val157= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Val36= Multiple submitters epilepsy, progressive myoclonic, 1B

Likely benign 160

  • c.132+20A>G Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.133-75G>T Multiple submitters
  • c.246+7T>C Multiple submitters
  • c.588+10del Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.588+18C>T Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.775+9_775+18del Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.-48-10897G>A Multiple submitters
  • c.-48-204G>A Multiple submitters
  • p.Arg813= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Asn688= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Gln726= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Glu499= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Gly481= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Gly732Arg Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.His511= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ile177= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Leu12= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Leu521= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Phe428= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Pro63= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ser20= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ser543= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Ser772= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Thr160= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Thr223= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Thr453= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Tyr33= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Tyr734= Multiple submitters epilepsy, progressive myoclonic, 1B
  • p.Tyr755= Multiple submitters epilepsy, progressive myoclonic, 1B
  • c.132+180A>G Single submitter
  • c.132+18C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.132+20del Single submitter epilepsy, progressive myoclonic, 1B
  • c.132+57T>C Single submitter
  • c.133-16A>C Single submitter
  • c.133-5del Single submitter epilepsy, progressive myoclonic, 1B
  • c.133-7_133-5del Single submitter epilepsy, progressive myoclonic, 1B
  • c.133-9C>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.1639+15G>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.1639+8_1639+20del Single submitter epilepsy, progressive myoclonic, 1B
  • c.1640-11C>T Single submitter
  • c.1640-12C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.1640-20T>A Single submitter epilepsy, progressive myoclonic, 1B
  • c.1640-234CAAAA[2] Single submitter
  • c.1640-256C>G Single submitter
  • c.1640-7C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.1640-9C>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.246+11A>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.246+20G>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.246+230C>T Single submitter
  • c.246+8A>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.246+8A>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.247-207A>T Single submitter
  • c.247-20C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.384+11C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.384+17C>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.385-20T>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.385-7T>C Single submitter epilepsy, progressive myoclonic, 1B
  • c.588+11G>C Single submitter epilepsy, progressive myoclonic, 1B
  • c.588+17C>A Single submitter
  • c.588+17C>T Single submitter epilepsy, progressive myoclonic, 1B
  • c.588+61A>T Single submitter
  • c.588+8A>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.589-9T>G Single submitter epilepsy, progressive myoclonic, 1B
  • c.775+19C>T Single submitter
  • c.775+216G>A Single submitter
  • c.775+48G>A Single submitter
  • c.-14A>G Single submitter
  • c.-40G>A Single submitter
  • c.-48-10607G>A Single submitter
  • c.-48-137G>T Single submitter
  • p.Ala124= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ala184= Single submitter
  • p.Ala541= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ala735= Single submitter
  • p.Arg209= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg534= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg590= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg627= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg648= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg657= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg659= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg666= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg677= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Arg68= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asn134= Single submitter
  • p.Asn447= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp174= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp201= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp234= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp519= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp551= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp636= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Asp796= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Cys218= Single submitter
  • p.Cys240= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Cys254= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gln17= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gln228= Single submitter
  • p.Gln457= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gln468= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gln625= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu163= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu185= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu441= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu454= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu530= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu54= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu720= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Glu774= Single submitter
  • p.Gly148= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gly180= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gly490= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gly64= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Gly825= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ile133= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ile437= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ile829= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu131= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu225= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu30= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu427= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu462= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu52= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu560= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu608= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu703= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu743= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Lys452= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Lys66= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Lys824= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Phe141= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Phe663= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Phe778= Single submitter
  • p.Pro58= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro617= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro628= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro651= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro697= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro706= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro78= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro801= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Pro802= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser483= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser532= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser536= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser562= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser600= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser622= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser768= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Ser770= Single submitter
  • p.Ser800= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Thr204= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Thr691= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Thr705= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Thr807= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Tyr709= Single submitter
  • p.Tyr794= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Val149= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Val166= Single submitter epilepsy, progressive myoclonic, 1B
  • p.Leu480= No assertion criteria PRICKLE1-related disorder

Uncertain significance 304

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