PTPN21 — 190 ClinVar variants
All ClinVar germline PTPN21 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 166 flagged for review →
3 Benign · 10 Likely benign · 177 Uncertain significance
Full PTPN21 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 166
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 lean, ClinVar uncertain 130
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- PTPN21 p.Ala144Thr Uncertain significance Single submitter
- PTPN21 p.Ala236Thr Uncertain significance Single submitter
- PTPN21 p.Ala381Val Uncertain significance Single submitter
- PTPN21 p.Ala465Val Uncertain significance Single submitter
- PTPN21 p.Ala508Val Uncertain significance Single submitter
- PTPN21 p.Ala641Ser Uncertain significance Single submitter
- PTPN21 p.Ala659Val Uncertain significance Single submitter
- PTPN21 p.Ala665Thr Uncertain significance Single submitter
- PTPN21 p.Ala732Glu Uncertain significance Single submitter
- PTPN21 p.Ala809Gly Uncertain significance Single submitter
- PTPN21 p.Ala809Val Uncertain significance Single submitter
- PTPN21 p.Ala92Thr Uncertain significance Single submitter
- PTPN21 p.Arg1013Gln Uncertain significance Single submitter
- PTPN21 p.Arg1144Gly Uncertain significance Single submitter
- PTPN21 p.Arg1144Lys Uncertain significance Single submitter
- PTPN21 p.Arg1144Thr Uncertain significance Single submitter
- PTPN21 p.Arg300Gln Uncertain significance Single submitter
- PTPN21 p.Arg388Gln Uncertain significance Single submitter
- PTPN21 p.Arg460Gly Uncertain significance Single submitter
- PTPN21 p.Arg460Met Uncertain significance Single submitter
- PTPN21 p.Arg559Trp Uncertain significance Single submitter
- PTPN21 p.Arg628His Uncertain significance Single submitter
- PTPN21 p.Arg667Pro Uncertain significance Single submitter
- PTPN21 p.Arg681Gly Uncertain significance Single submitter
- PTPN21 p.Arg726Pro Uncertain significance Single submitter
- PTPN21 p.Arg726Trp Uncertain significance Single submitter
- PTPN21 p.Arg843Leu Uncertain significance Single submitter
- PTPN21 p.Arg864Gln Uncertain significance Single submitter
- PTPN21 p.Arg890Gln Uncertain significance Single submitter
- PTPN21 p.Arg907Gly Uncertain significance Single submitter
- PTPN21 p.Arg926Gln Uncertain significance Single submitter
- PTPN21 p.Asn1101Ser Uncertain significance Single submitter
- PTPN21 p.Asn401Asp Uncertain significance Single submitter
- PTPN21 p.Asn405His Uncertain significance Single submitter
- PTPN21 p.Asp881Asn Uncertain significance Single submitter
- PTPN21 p.Asp89Gly Uncertain significance Single submitter
- PTPN21 p.Asp910Asn Uncertain significance Single submitter
- PTPN21 p.Asp910Gly Uncertain significance Single submitter
- PTPN21 p.Gln161Glu Uncertain significance Single submitter
- PTPN21 p.Gln176Glu Uncertain significance Single submitter
- PTPN21 p.Gln631Arg Uncertain significance Single submitter
- PTPN21 p.Gln72Glu Uncertain significance Single submitter
- PTPN21 p.Gln741Glu Uncertain significance Single submitter
- PTPN21 p.Gln893Arg Uncertain significance Single submitter
- PTPN21 p.Glu114Lys Uncertain significance Single submitter
- PTPN21 p.Glu498Lys Uncertain significance Single submitter
- PTPN21 p.Glu685Lys Uncertain significance Single submitter
- PTPN21 p.Glu688Gln Uncertain significance Single submitter
- PTPN21 p.Glu689Ala Uncertain significance Single submitter
- PTPN21 p.Glu715Asp Uncertain significance Single submitter
- PTPN21 p.Glu720Lys Uncertain significance Single submitter
- PTPN21 p.Glu721Asp Uncertain significance Single submitter
- PTPN21 p.Glu722Val Uncertain significance Single submitter
- PTPN21 p.Glu912Asp Uncertain significance Single submitter
- PTPN21 p.Gly1002Ser Uncertain significance Single submitter
- PTPN21 p.Gly392Ser Uncertain significance Single submitter
- PTPN21 p.Gly461Val Uncertain significance Single submitter
- PTPN21 p.Gly696Arg Uncertain significance Single submitter
- PTPN21 p.Gly871Arg Uncertain significance Single submitter
- PTPN21 p.His633Pro Uncertain significance Single submitter
- PTPN21 p.Ile1123Leu Uncertain significance Single submitter
- PTPN21 p.Ile128Val Uncertain significance Single submitter
- PTPN21 p.Ile141Met Uncertain significance Single submitter
- PTPN21 p.Ile496Met Uncertain significance Single submitter
- PTPN21 p.Ile557Met Uncertain significance Single submitter
- PTPN21 p.Ile587Val Uncertain significance Single submitter
- PTPN21 p.Ile757Phe Uncertain significance Single submitter
- PTPN21 p.Ile963Val Uncertain significance Single submitter
- PTPN21 p.Leu362Phe Uncertain significance Single submitter
- PTPN21 p.Leu458Phe Uncertain significance Single submitter
- PTPN21 p.Leu462Pro Uncertain significance Single submitter
- PTPN21 p.Leu547Pro Uncertain significance Single submitter
- PTPN21 p.Leu547Val Uncertain significance Single submitter
- PTPN21 p.Leu611Val Uncertain significance Single submitter
- PTPN21 p.Leu739Val Uncertain significance Single submitter
- PTPN21 p.Leu862Gln Uncertain significance Single submitter
- PTPN21 p.Lys653Glu Uncertain significance Single submitter
- PTPN21 p.Lys827Asn Uncertain significance Single submitter
- PTPN21 p.Met208Leu Uncertain significance Single submitter
- PTPN21 p.Met706Val Uncertain significance Single submitter
- PTPN21 p.Met772Leu Uncertain significance Single submitter
- PTPN21 p.Met796Leu Uncertain significance Single submitter
- PTPN21 p.Phe1026Tyr Uncertain significance Single submitter
- PTPN21 p.Pro1012Thr Uncertain significance Single submitter
- PTPN21 p.Pro1100Leu Uncertain significance Single submitter
- PTPN21 p.Pro201Ser Uncertain significance Single submitter
- PTPN21 p.Pro336Arg Uncertain significance Single submitter
- PTPN21 p.Pro505Leu Uncertain significance Single submitter
- PTPN21 p.Pro511Arg Uncertain significance Single submitter
- PTPN21 p.Pro527Arg Uncertain significance Single submitter
- PTPN21 p.Pro527Leu Uncertain significance Single submitter
- PTPN21 p.Pro532Arg Uncertain significance Single submitter
- PTPN21 p.Pro553Ser Uncertain significance Single submitter
- PTPN21 p.Pro570Leu Uncertain significance Single submitter
- PTPN21 p.Pro666Arg Uncertain significance Single submitter
- PTPN21 p.Pro675Arg Uncertain significance Single submitter
- PTPN21 p.Pro737His Uncertain significance Single submitter
- PTPN21 p.Pro743Ser Uncertain significance Single submitter
- PTPN21 p.Pro747Leu Uncertain significance Single submitter
- PTPN21 p.Pro866Arg Uncertain significance Single submitter
- PTPN21 p.Ser263Phe Uncertain significance Single submitter
- PTPN21 p.Ser480Leu Uncertain significance Single submitter
- PTPN21 p.Ser484Cys Uncertain significance Single submitter
- PTPN21 p.Ser48Asn Uncertain significance Single submitter
- PTPN21 p.Ser554Cys Uncertain significance Single submitter
- PTPN21 p.Ser616Trp Uncertain significance Single submitter
- PTPN21 p.Ser676Gly Uncertain significance Single submitter
- PTPN21 p.Ser813Thr Uncertain significance Single submitter
- PTPN21 p.Ser914Leu Uncertain significance Single submitter
- PTPN21 p.Ser961Arg Uncertain significance Single submitter
- PTPN21 p.Thr560Ala Uncertain significance Single submitter
- PTPN21 p.Thr560Arg Uncertain significance Single submitter
- PTPN21 p.Thr560Pro Uncertain significance Single submitter
- PTPN21 p.Thr560Ser Uncertain significance Single submitter
- PTPN21 p.Thr625Ala Uncertain significance Single submitter
- PTPN21 p.Thr997Arg Uncertain significance Single submitter
- PTPN21 p.Tyr1010Cys Uncertain significance Single submitter
- PTPN21 p.Tyr217Cys Uncertain significance Single submitter
- PTPN21 p.Tyr516Cys Uncertain significance Single submitter
- PTPN21 p.Tyr807Cys Uncertain significance Single submitter
- PTPN21 p.Val1106Ala Uncertain significance Single submitter
- PTPN21 p.Val1118Leu Uncertain significance Single submitter
- PTPN21 p.Val1163Ile Uncertain significance Single submitter
- PTPN21 p.Val35Met Uncertain significance Single submitter
- PTPN21 p.Val463Met Uncertain significance Single submitter
- PTPN21 p.Val669Ala Uncertain significance Single submitter
- PTPN21 p.Val777Ile Uncertain significance Single submitter
- PTPN21 p.Val78Ala Uncertain significance Single submitter
- PTPN21 p.Val78Ile Uncertain significance Single submitter
- PTPN21 p.Val97Ile Uncertain significance Single submitter
Predictors split 36
The independent predictors disagree with each other — read with care.
- PTPN21 p.Ala150Val Uncertain significance Single submitter
- PTPN21 p.Ala299Val Uncertain significance Single submitter
- PTPN21 p.Arg388Trp Uncertain significance Single submitter
- PTPN21 p.Arg573Gly Uncertain significance Single submitter
- PTPN21 p.Arg598Cys Uncertain significance Single submitter
- PTPN21 p.Arg598Gly Uncertain significance Single submitter
- PTPN21 p.Arg655Cys Uncertain significance Single submitter
- PTPN21 p.Arg655Ser Uncertain significance Single submitter
- PTPN21 p.Arg75Cys Uncertain significance Single submitter
- PTPN21 p.Asn576Lys Uncertain significance Single submitter
- PTPN21 p.Asp127Tyr Uncertain significance Single submitter
- PTPN21 p.Cys237Gly Uncertain significance Single submitter
- PTPN21 p.Cys237Ser Uncertain significance Single submitter
- PTPN21 p.Cys297Ser Uncertain significance Single submitter
- PTPN21 p.Cys978Ser Uncertain significance Single submitter
- PTPN21 p.His1018Gln Uncertain significance Single submitter
- PTPN21 p.His1090Tyr Uncertain significance Single submitter
- PTPN21 p.His709Gln Uncertain significance Single submitter
- PTPN21 p.Ile1125Thr Uncertain significance Single submitter
- PTPN21 p.Leu594Phe Uncertain significance Single submitter
- PTPN21 p.Leu647Pro Uncertain significance Single submitter
- PTPN21 p.Leu88Met Uncertain significance Single submitter
- PTPN21 p.Phe1167Leu Uncertain significance Single submitter
- PTPN21 p.Phe163Leu Uncertain significance Single submitter
- PTPN21 p.Pro443Ser Uncertain significance Single submitter
- PTPN21 p.Pro447Thr Uncertain significance Single submitter
- PTPN21 p.Pro612Thr Uncertain significance Single submitter
- PTPN21 p.Pro851Ser Uncertain significance Single submitter
- PTPN21 p.Ser1086Cys Uncertain significance Single submitter
- PTPN21 p.Ser610Ile Uncertain significance Single submitter
- PTPN21 p.Ser616Leu Uncertain significance Single submitter
- PTPN21 p.Ser799Phe Uncertain significance Single submitter
- PTPN21 p.Thr1029Met Uncertain significance Single submitter
- PTPN21 p.Tyr292His Uncertain significance Single submitter
-
PTPN21 p.Asn32His
Uncertain significance
No assertion criteria
prostate cancer
-
PTPN21 p.Gln113His
Uncertain significance
No assertion criteria
myoepithelial tumor
All PTPN21 variants
Benign 3
- p.Pro754= Multiple submitters
- p.His600Gln Single submitter
- p.Ser1099Asn Single submitter
Likely benign 10
- p.Ala665Val Single submitter
- p.Arg1017= Single submitter
- p.Arg117= Single submitter
- p.Arg684Gln Single submitter
- p.Glu717= Single submitter
- p.Gly646Ser Single submitter
- p.Gly745Arg Single submitter
- p.Ile293Val Single submitter
- p.Pro786Ala Single submitter
- p.Pro818= Single submitter
Uncertain significance 177
- p.Ala144Thr Single submitter ⚠
- p.Ala150Val Single submitter ⚠
- p.Ala236Thr Single submitter ⚠
- p.Ala299Val Single submitter ⚠
- p.Ala381Val Single submitter ⚠
- p.Ala465Val Single submitter ⚠
- p.Ala508Val Single submitter ⚠
- p.Ala641Ser Single submitter ⚠
- p.Ala659Val Single submitter ⚠
- p.Ala665Thr Single submitter ⚠
- p.Ala732Glu Single submitter ⚠
- p.Ala809Gly Single submitter ⚠
- p.Ala809Val Single submitter ⚠
- p.Ala92Thr Single submitter ⚠
- p.Arg1013Gln Single submitter ⚠
- p.Arg1031Gln Single submitter
- p.Arg1144Gly Single submitter ⚠
- p.Arg1144Lys Single submitter ⚠
- p.Arg1144Thr Single submitter ⚠
- p.Arg300Gln Single submitter ⚠
- p.Arg388Gln Single submitter ⚠
- p.Arg388Trp Single submitter ⚠
- p.Arg460Gly Single submitter ⚠
- p.Arg460Met Single submitter ⚠
- p.Arg559Trp Single submitter ⚠
- p.Arg573Gly Single submitter ⚠
- p.Arg598Cys Single submitter ⚠
- p.Arg598Gly Single submitter ⚠
- p.Arg628His Single submitter ⚠
- p.Arg655Cys Single submitter ⚠
- p.Arg655Ser Single submitter ⚠
- p.Arg667Pro Single submitter ⚠
- p.Arg681Gly Single submitter ⚠
- p.Arg726Pro Single submitter ⚠
- p.Arg726Trp Single submitter ⚠
- p.Arg75Cys Single submitter ⚠
- p.Arg843Leu Single submitter ⚠
- p.Arg864Gln Single submitter ⚠
- p.Arg890Gln Single submitter ⚠
- p.Arg907Gly Single submitter ⚠
- p.Arg926Gln Single submitter ⚠
- p.Asn1101Ser Single submitter ⚠
- p.Asn401Asp Single submitter ⚠
- p.Asn405His Single submitter ⚠
- p.Asn576Lys Single submitter ⚠
- p.Asp1135His Single submitter
- p.Asp127Tyr Single submitter ⚠
- p.Asp430His Single submitter
- p.Asp881Asn Single submitter ⚠
- p.Asp89Gly Single submitter ⚠
- p.Asp910Asn Single submitter ⚠
- p.Asp910Gly Single submitter ⚠
- p.Cys237Gly Single submitter ⚠
- p.Cys237Ser Single submitter ⚠
- p.Cys297Ser Single submitter ⚠
- p.Cys978Ser Single submitter ⚠
- p.Gln161Glu Single submitter ⚠
- p.Gln176Glu Single submitter ⚠
- p.Gln631Arg Single submitter ⚠
- p.Gln72Glu Single submitter ⚠
- p.Gln741Glu Single submitter ⚠
- p.Gln893Arg Single submitter ⚠
- p.Glu114Lys Single submitter ⚠
- p.Glu498Lys Single submitter ⚠
- p.Glu685Lys Single submitter ⚠
- p.Glu688Gln Single submitter ⚠
- p.Glu689Ala Single submitter ⚠
- p.Glu715Asp Single submitter ⚠
- p.Glu720Lys Single submitter ⚠
- p.Glu721Asp Single submitter ⚠
- p.Glu722Val Single submitter ⚠
- p.Glu912Asp Single submitter ⚠
- p.Gly1002Ser Single submitter ⚠
- p.Gly392Ser Single submitter ⚠
- p.Gly461Val Single submitter ⚠
- p.Gly478Arg Single submitter
- p.Gly696Arg Single submitter ⚠
- p.Gly871Arg Single submitter ⚠
- p.His1018Gln Single submitter ⚠
- p.His1090Tyr Single submitter ⚠
- p.His633Pro Single submitter ⚠
- p.His709Gln Single submitter ⚠
- p.Ile1123Leu Single submitter ⚠
- p.Ile1125Thr Single submitter ⚠
- p.Ile128Val Single submitter ⚠
- p.Ile141Met Single submitter ⚠
- p.Ile496Met Single submitter ⚠
- p.Ile557Met Single submitter ⚠
- p.Ile587Val Single submitter ⚠
- p.Ile757Phe Single submitter ⚠
- p.Ile963Val Single submitter ⚠
- p.Leu362Phe Single submitter ⚠
- p.Leu458Phe Single submitter ⚠
- p.Leu462Pro Single submitter ⚠
- p.Leu547Pro Single submitter ⚠
- p.Leu547Val Single submitter ⚠
- p.Leu56Val Single submitter
- p.Leu594Phe Single submitter ⚠
- p.Leu611Val Single submitter ⚠
- p.Leu647Pro Single submitter ⚠
- p.Leu739Val Single submitter ⚠
- p.Leu862Gln Single submitter ⚠
- p.Leu88Met Single submitter ⚠
- p.Lys653Glu Single submitter ⚠
- p.Lys827Asn Single submitter ⚠
- p.Met208Leu Single submitter ⚠
- p.Met287Thr Single submitter
- p.Met706Leu Single submitter
- p.Met706Val Single submitter ⚠
- p.Met772Leu Single submitter ⚠
- p.Met796Leu Single submitter ⚠
- p.Phe1026Tyr Single submitter ⚠
- p.Phe1167Leu Single submitter ⚠
- p.Phe163Leu Single submitter ⚠
- p.Pro1012Thr Single submitter ⚠
- p.Pro1100Leu Single submitter ⚠
- p.Pro201Ser Single submitter ⚠
- p.Pro336Arg Single submitter ⚠
- p.Pro443Ser Single submitter ⚠
- p.Pro447Thr Single submitter ⚠
- p.Pro505Leu Single submitter ⚠
- p.Pro511Arg Single submitter ⚠
- p.Pro527Arg Single submitter ⚠
- p.Pro527Leu Single submitter ⚠
- p.Pro532Arg Single submitter ⚠
- p.Pro553Ser Single submitter ⚠
- p.Pro570Leu Single submitter ⚠
- p.Pro612Thr Single submitter ⚠
- p.Pro666Arg Single submitter ⚠
- p.Pro675Arg Single submitter ⚠
- p.Pro737His Single submitter ⚠
- p.Pro743Ser Single submitter ⚠
- p.Pro747Leu Single submitter ⚠
- p.Pro851Ser Single submitter ⚠
- p.Pro866Arg Single submitter ⚠
- p.Ser1086Cys Single submitter ⚠
- p.Ser263Phe Single submitter ⚠
- p.Ser480Leu Single submitter ⚠
- p.Ser484Cys Single submitter ⚠
- p.Ser48Asn Single submitter ⚠
- p.Ser554Cys Single submitter ⚠
- p.Ser610Gly Single submitter
- p.Ser610Ile Single submitter ⚠
- p.Ser616Leu Single submitter ⚠
- p.Ser616Trp Single submitter ⚠
- p.Ser676Gly Single submitter ⚠
- p.Ser799Phe Single submitter ⚠
- p.Ser813Thr Single submitter ⚠
- p.Ser914Leu Single submitter ⚠
- p.Ser961Arg Single submitter ⚠
- p.Thr1029Met Single submitter ⚠
- p.Thr1091Ile Single submitter
- p.Thr560Ala Single submitter ⚠
- p.Thr560Arg Single submitter ⚠
- p.Thr560Pro Single submitter ⚠
- p.Thr560Ser Single submitter ⚠
- p.Thr625Ala Single submitter ⚠
- p.Thr943Ala Single submitter
- p.Thr997Arg Single submitter ⚠
- p.Tyr1010Cys Single submitter ⚠
- p.Tyr217Cys Single submitter ⚠
- p.Tyr292His Single submitter ⚠
- p.Tyr516Cys Single submitter ⚠
- p.Tyr807Cys Single submitter ⚠
- p.Val1106Ala Single submitter ⚠
- p.Val1117Ala Single submitter
- p.Val1118Leu Single submitter ⚠
- p.Val1163Ile Single submitter ⚠
- p.Val35Met Single submitter ⚠
- p.Val463Met Single submitter ⚠
- p.Val669Ala Single submitter ⚠
- p.Val777Ile Single submitter ⚠
- p.Val78Ala Single submitter ⚠
- p.Val78Ile Single submitter ⚠
- p.Val97Ile Single submitter ⚠
- p.Asn32His No assertion criteria prostate cancer ⚠
- p.Gln113His No assertion criteria myoepithelial tumor ⚠