RPN2 — 245 ClinVar variants

All ClinVar germline RPN2 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 115 flagged for review →

1 Conflicting · 38 Benign · 3 Benign/Likely benign · 81 Likely benign · 122 Uncertain significance

Full RPN2 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 115

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 1

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

Predictors lean, ClinVar uncertain 87

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

Predictors split 27

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

All RPN2 variants

Conflicting classifications of pathogenicity 1

  • p.Ala63Val Single submitter congenital disorder of glycosylation ⚠

Benign 38

Benign/Likely benign 3

  • c.303+8C>T Multiple submitters congenital disorder of glycosylation
  • p.Asp281Asn Multiple submitters congenital disorder of glycosylation
  • p.Gly374Asp Multiple submitters congenital disorder of glycosylation

Likely benign 81

  • c.1299+119C>T Multiple submitters
  • c.14-109C>T Multiple submitters
  • c.867+12A>G Multiple submitters congenital disorder of glycosylation
  • c.1093-12A>G Single submitter congenital disorder of glycosylation
  • c.1184+16C>T Single submitter congenital disorder of glycosylation
  • c.1185-15A>G Single submitter congenital disorder of glycosylation
  • c.1185-17C>T Single submitter congenital disorder of glycosylation
  • c.1299+12A>T Single submitter congenital disorder of glycosylation
  • c.13+11G>T Single submitter congenital disorder of glycosylation
  • c.13+12C>G Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insACAGACAGGGCCCCGCGGCCGACACTCTT Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insACAGACAGGGCCCCGCGGCCGGCACTCTT Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insATAGACAGGGCCCCGCGGCCGGCACTCTT Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insATAGACAGGGCCCGCGGCCGGCACTCTT Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insATAGACAGGGCCCGGCGGCCGGCACTCTT Single submitter congenital disorder of glycosylation
  • c.13+21_13+22insATAGACGGGGCCCCGCGGCCGGCACTCTT Single submitter congenital disorder of glycosylation
  • c.14-4C>G Single submitter congenital disorder of glycosylation
  • c.14-6C>G Single submitter congenital disorder of glycosylation
  • c.14-9C>T Single submitter congenital disorder of glycosylation
  • c.1495-19_1495-18del Single submitter congenital disorder of glycosylation
  • c.1581+20T>G Single submitter congenital disorder of glycosylation
  • c.1582-42G>A Single submitter
  • c.1582-6C>G Single submitter congenital disorder of glycosylation
  • c.1677+19C>T Single submitter congenital disorder of glycosylation
  • c.1677+20G>A Single submitter congenital disorder of glycosylation
  • c.1678-4T>C Single submitter congenital disorder of glycosylation
  • c.1883+13A>G Single submitter congenital disorder of glycosylation
  • c.207+17C>T Single submitter congenital disorder of glycosylation
  • c.207+20G>A Single submitter congenital disorder of glycosylation
  • c.207+9G>A Single submitter congenital disorder of glycosylation
  • c.303+14C>G Single submitter congenital disorder of glycosylation
  • c.303+18C>T Single submitter congenital disorder of glycosylation
  • c.303+9G>A Single submitter congenital disorder of glycosylation
  • c.479+15C>T Single submitter congenital disorder of glycosylation
  • c.480-18C>G Single submitter congenital disorder of glycosylation
  • c.556-4G>T Single submitter congenital disorder of glycosylation
  • c.986+17T>A Single submitter congenital disorder of glycosylation
  • p.Ala168= Single submitter congenital disorder of glycosylation
  • p.Ala451= Single submitter congenital disorder of glycosylation
  • p.Arg266Cys Single submitter congenital disorder of glycosylation ⚠
  • p.Arg531= Single submitter congenital disorder of glycosylation
  • p.Asn238= Single submitter congenital disorder of glycosylation
  • p.Asn338= Single submitter congenital disorder of glycosylation
  • p.Asn457= Single submitter congenital disorder of glycosylation
  • p.Asn492= Single submitter congenital disorder of glycosylation
  • p.Asn543Asp Single submitter congenital disorder of glycosylation
  • p.Asp231= Single submitter congenital disorder of glycosylation
  • p.Asp33= Single submitter congenital disorder of glycosylation
  • p.Asp454= Single submitter congenital disorder of glycosylation
  • p.Gln517= Single submitter congenital disorder of glycosylation
  • p.Glu107= Single submitter congenital disorder of glycosylation
  • p.Glu532Lys Single submitter congenital disorder of glycosylation ⚠
  • p.Gly196= Single submitter congenital disorder of glycosylation
  • p.His268= Single submitter congenital disorder of glycosylation
  • p.Ile526= Single submitter congenital disorder of glycosylation
  • p.Leu132= Single submitter congenital disorder of glycosylation
  • p.Leu159= Single submitter congenital disorder of glycosylation
  • p.Leu296= Single submitter congenital disorder of glycosylation
  • p.Leu416= Single submitter congenital disorder of glycosylation
  • p.Leu495= Single submitter congenital disorder of glycosylation
  • p.Leu61= Single submitter congenital disorder of glycosylation
  • p.Pro327= Single submitter congenital disorder of glycosylation
  • p.Pro506= Single submitter congenital disorder of glycosylation
  • p.Ser19= Single submitter congenital disorder of glycosylation
  • p.Ser280= Single submitter congenital disorder of glycosylation
  • p.Ser466= Single submitter congenital disorder of glycosylation
  • p.Ser512= Single submitter congenital disorder of glycosylation
  • p.Ser551= Single submitter congenital disorder of glycosylation
  • p.Ser6= Single submitter congenital disorder of glycosylation
  • p.Thr26= Single submitter congenital disorder of glycosylation
  • p.Thr362= Single submitter congenital disorder of glycosylation
  • p.Thr434= Single submitter congenital disorder of glycosylation
  • p.Thr46= Single submitter congenital disorder of glycosylation
  • p.Thr539= Single submitter congenital disorder of glycosylation
  • p.Thr613= Single submitter congenital disorder of glycosylation
  • p.Tyr89= Single submitter congenital disorder of glycosylation
  • p.Val162Ile Single submitter congenital disorder of glycosylation
  • p.Val328= Single submitter congenital disorder of glycosylation
  • p.Val383Met Single submitter congenital disorder of glycosylation
  • p.Val458Met Single submitter congenital disorder of glycosylation
  • p.Val56Met Single submitter congenital disorder of glycosylation

Uncertain significance 122