LCP2 — 104 ClinVar variants
All ClinVar germline LCP2 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 69 flagged for review →
1 Pathogenic · 16 Benign · 1 Benign/Likely benign · 16 Likely benign · 70 Uncertain significance
Full LCP2 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 69
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 57
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- LCP2 p.Arg407Trp Uncertain significance Multiple submitters
- LCP2 p.Pro328Leu Uncertain significance Multiple submitters
- LCP2 p.Ala143Thr Uncertain significance Single submitter
- LCP2 p.Ala143Val Uncertain significance Single submitter
- LCP2 p.Ala196Thr Uncertain significance Single submitter
- LCP2 p.Ala412Glu Uncertain significance Single submitter
- LCP2 p.Ala412Thr Uncertain significance Single submitter
- LCP2 p.Ala434Thr Uncertain significance Single submitter
- LCP2 p.Ala434Val Uncertain significance Single submitter
-
LCP2 p.Arg204Trp
Uncertain significance
Single submitter
immunodeficiency 81
- LCP2 p.Arg296Ser Uncertain significance Single submitter
- LCP2 p.Arg316Gly Uncertain significance Single submitter
- LCP2 p.Arg90Trp Uncertain significance Single submitter
- LCP2 p.Asn168Ile Uncertain significance Single submitter
- LCP2 p.Asn215Ser Uncertain significance Single submitter
- LCP2 p.Asp121Glu Uncertain significance Single submitter
- LCP2 p.Asp142Glu Uncertain significance Single submitter
- LCP2 p.Asp16Asn Uncertain significance Single submitter
- LCP2 p.Asp18Asn Uncertain significance Single submitter
- LCP2 p.Asp467Asn Uncertain significance Single submitter
- LCP2 p.Asp53Gly Uncertain significance Single submitter
- LCP2 p.Gly180Ala Uncertain significance Single submitter
- LCP2 p.Gly276Arg Uncertain significance Single submitter
- LCP2 p.His225Asn Uncertain significance Single submitter
- LCP2 p.His310Asn Uncertain significance Single submitter
- LCP2 p.His310Tyr Uncertain significance Single submitter
-
LCP2 p.Ile427Val
Uncertain significance
Single submitter
immunodeficiency 81
- LCP2 p.Ile64Met Uncertain significance Single submitter
- LCP2 p.Leu334Val Uncertain significance Single submitter
- LCP2 p.Leu484Phe Uncertain significance Single submitter
- LCP2 p.Leu49Met Uncertain significance Single submitter
- LCP2 p.Leu65Ile Uncertain significance Single submitter
- LCP2 p.Met172Thr Uncertain significance Single submitter
- LCP2 p.Met337Lys Uncertain significance Single submitter
- LCP2 p.Met337Thr Uncertain significance Single submitter
- LCP2 p.Pro138Ala Uncertain significance Single submitter
- LCP2 p.Pro177Leu Uncertain significance Single submitter
- LCP2 p.Pro177Ser Uncertain significance Single submitter
- LCP2 p.Pro178His Uncertain significance Single submitter
- LCP2 p.Pro198Leu Uncertain significance Single submitter
- LCP2 p.Pro200Thr Uncertain significance Single submitter
- LCP2 p.Pro242Ser Uncertain significance Single submitter
- LCP2 p.Pro285Leu Uncertain significance Single submitter
- LCP2 p.Pro299Leu Uncertain significance Single submitter
- LCP2 p.Pro406Ser Uncertain significance Single submitter
- LCP2 p.Pro408Ser Uncertain significance Single submitter
- LCP2 p.Pro408Thr Uncertain significance Single submitter
- LCP2 p.Pro411Ser Uncertain significance Single submitter
- LCP2 p.Pro89Leu Uncertain significance Single submitter
- LCP2 p.Ser338Asn Uncertain significance Single submitter
- LCP2 p.Ser369Asn Uncertain significance Single submitter
- LCP2 p.Ser410Pro Uncertain significance Single submitter
- LCP2 p.Thr256Ala Uncertain significance Single submitter
- LCP2 p.Thr50Ile Uncertain significance Single submitter
- LCP2 p.Thr527Met Uncertain significance Single submitter
- LCP2 p.Val139Met Uncertain significance Single submitter
- LCP2 p.Val424Ile Uncertain significance Single submitter
Predictors split 12
The independent predictors disagree with each other — read with care.
- LCP2 p.Arg45Cys Uncertain significance Single submitter
- LCP2 p.Arg518Gln Uncertain significance Single submitter
- LCP2 p.Asp112Asn Uncertain significance Single submitter
- LCP2 p.Glu129Gln Uncertain significance Single submitter
- LCP2 p.Glu76Lys Uncertain significance Single submitter
- LCP2 p.Pro189Arg Uncertain significance Single submitter
-
LCP2 p.Pro190Arg
Uncertain significance
Single submitter
immunodeficiency 81
- LCP2 p.Pro190Leu Uncertain significance Single submitter
- LCP2 p.Pro190Ser Uncertain significance Single submitter
- LCP2 p.Pro262Arg Uncertain significance Single submitter
- LCP2 p.Pro305Arg Uncertain significance Single submitter
- LCP2 p.Ser115Arg Uncertain significance Single submitter
All LCP2 variants
Pathogenic 1
- c.957+1G>A No assertion criteria immunodeficiency 81
Benign 16
- c.142-18T>C Multiple submitters
- c.523+16C>T Multiple submitters
- c.*7del Multiple submitters
- p.Gln326= Multiple submitters
- p.Pro242= Multiple submitters
- p.Val188= Multiple submitters
- c.1100+3T>C Single submitter
- c.255-35G>T Single submitter
- c.325-107T>C Single submitter
- c.926+120C>T Single submitter
- c.926+35C>G Single submitter
- c.927-14C>T Single submitter
- c.958-125A>G Single submitter
- c.971-17T>C Single submitter
- c.-14C>G Single submitter
- p.Pro190= Single submitter
Benign/Likely benign 1
- p.Ser410Cys Multiple submitters
Likely benign 16
- p.Tyr522His Multiple submitters
- c.142-14T>C Single submitter
- c.523+7G>A Single submitter
- c.523+8C>T Single submitter
- c.957+8C>T Single submitter
- p.Ala202= Single submitter
- p.Ala393= Single submitter
- p.Asp42Asn Single submitter
- p.His98= Single submitter
- p.Lys56= Single submitter
- p.Pro17= Single submitter
- p.Pro177= Single submitter
- p.Pro200= Single submitter
- p.Ser268= Single submitter
- p.Thr239= Single submitter
- p.Tyr29= Single submitter
Uncertain significance 70
- p.Arg407Trp Multiple submitters ⚠
- p.Pro328Leu Multiple submitters ⚠
- p.Ala143Thr Single submitter ⚠
- p.Ala143Val Single submitter ⚠
- p.Ala196Thr Single submitter ⚠
- p.Ala412Glu Single submitter ⚠
- p.Ala412Thr Single submitter ⚠
- p.Ala434Thr Single submitter ⚠
- p.Ala434Val Single submitter ⚠
- p.Arg204Trp Single submitter immunodeficiency 81 ⚠
- p.Arg296Ser Single submitter ⚠
- p.Arg316Gly Single submitter ⚠
- p.Arg45Cys Single submitter ⚠
- p.Arg518Gln Single submitter ⚠
- p.Arg61Trp Single submitter
- p.Arg90Trp Single submitter ⚠
- p.Asn168Ile Single submitter ⚠
- p.Asn215Ser Single submitter ⚠
- p.Asp112Asn Single submitter ⚠
- p.Asp121Glu Single submitter ⚠
- p.Asp142Glu Single submitter ⚠
- p.Asp16Asn Single submitter ⚠
- p.Asp18Asn Single submitter ⚠
- p.Asp467Asn Single submitter ⚠
- p.Asp53Gly Single submitter ⚠
- p.Glu129Gln Single submitter ⚠
- p.Glu76Lys Single submitter ⚠
- p.Gly180Ala Single submitter ⚠
- p.Gly276Arg Single submitter ⚠
- p.His225Asn Single submitter ⚠
- p.His310Asn Single submitter ⚠
- p.His310Tyr Single submitter ⚠
- p.Ile427Val Single submitter immunodeficiency 81 ⚠
- p.Ile64Met Single submitter ⚠
- p.Leu334Val Single submitter ⚠
- p.Leu484Phe Single submitter ⚠
- p.Leu49Met Single submitter ⚠
- p.Leu65Ile Single submitter ⚠
- p.Met172Thr Single submitter ⚠
- p.Met337Lys Single submitter ⚠
- p.Met337Thr Single submitter ⚠
- p.Pro138Ala Single submitter ⚠
- p.Pro177Leu Single submitter ⚠
- p.Pro177Ser Single submitter ⚠
- p.Pro178His Single submitter ⚠
- p.Pro189Arg Single submitter ⚠
- p.Pro190Arg Single submitter immunodeficiency 81 ⚠
- p.Pro190Leu Single submitter ⚠
- p.Pro190Ser Single submitter ⚠
- p.Pro198Leu Single submitter ⚠
- p.Pro200Thr Single submitter ⚠
- p.Pro242Ser Single submitter ⚠
- p.Pro262Arg Single submitter ⚠
- p.Pro285Leu Single submitter ⚠
- p.Pro299Leu Single submitter ⚠
- p.Pro305Arg Single submitter ⚠
- p.Pro406Ser Single submitter ⚠
- p.Pro408Ser Single submitter ⚠
- p.Pro408Thr Single submitter ⚠
- p.Pro411Ser Single submitter ⚠
- p.Pro89Leu Single submitter ⚠
- p.Ser115Arg Single submitter ⚠
- p.Ser338Asn Single submitter ⚠
- p.Ser369Asn Single submitter ⚠
- p.Ser410Pro Single submitter ⚠
- p.Thr256Ala Single submitter ⚠
- p.Thr50Ile Single submitter ⚠
- p.Thr527Met Single submitter ⚠
- p.Val139Met Single submitter ⚠
- p.Val424Ile Single submitter ⚠