MGP — 118 ClinVar variants
All ClinVar germline MGP variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 33 flagged for review →
3 Pathogenic · 1 Pathogenic/Likely pathogenic · 1 Likely pathogenic · 5 Conflicting · 11 Benign · 5 Benign/Likely benign · 49 Likely benign · 43 Uncertain significance
Full MGP gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 33
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.
-
MGP p.Cys19Phe
Conflicting
Single submitter
spondyloepiphyseal dysplasia
Predictors lean, ClinVar uncertain 22
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- MGP p.Arg61His Uncertain significance Multiple submitters
- MGP p.Gln47Glu Uncertain significance Multiple submitters
-
MGP p.Met26Thr
Uncertain significance
Multiple submitters
Keutel syndrome
-
MGP p.Tyr76His
Uncertain significance
Multiple submitters
MGP-related disorder
- MGP p.Ala12Thr Uncertain significance Single submitter
- MGP p.Ala14Val Uncertain significance Single submitter
- MGP p.Ala52Ser Uncertain significance Single submitter
- MGP p.Arg59Gln Uncertain significance Single submitter
- MGP p.Arg59Pro Uncertain significance Single submitter
- MGP p.Arg81Pro Uncertain significance Single submitter
- MGP p.Arg99His Uncertain significance Single submitter
- MGP p.Arg99Pro Uncertain significance Single submitter
- MGP p.Asn69His Uncertain significance Single submitter
- MGP p.Asn69Ser Uncertain significance Single submitter
- MGP p.Cys79Arg Uncertain significance Single submitter
- MGP p.His23Gln Uncertain significance Single submitter
- MGP p.His66Gln Uncertain significance Single submitter
- MGP p.Ile9Leu Uncertain significance Single submitter
- MGP p.Met84Leu Uncertain significance Single submitter
- MGP p.Pro33Ala Uncertain significance Single submitter
-
MGP p.Pro46Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
MGP p.Val16Ile
Uncertain significance
Single submitter
Keutel syndrome
Predictors split 10
The independent predictors disagree with each other — read with care.
- MGP p.Ala72Gly Uncertain significance Single submitter
- MGP p.Arg94His Uncertain significance Single submitter
- MGP p.Asp74His Uncertain significance Single submitter
-
MGP p.Glu21Val
Uncertain significance
Single submitter
Keutel syndrome
- MGP p.Glu67Lys Uncertain significance Single submitter
-
MGP p.Ile44Thr
Uncertain significance
Single submitter
Inborn genetic diseases
- MGP p.Leu7Pro Uncertain significance Single submitter
-
MGP p.Pro33Arg
Uncertain significance
Single submitter
Inborn genetic diseases
- MGP p.Ser25Arg Uncertain significance Single submitter
- MGP p.Trp50Arg Uncertain significance Single submitter
All MGP variants
Pathogenic 3
- c.62-2A>G No assertion criteria Keutel syndrome
- p.Ala14_Val15insTer No assertion criteria Keutel syndrome
- p.Tyr29Ter No assertion criteria Keutel syndrome
Pathogenic/Likely pathogenic 1
- c.94+1G>A Multiple submitters Keutel syndrome
Likely pathogenic 1
- c.94+2T>C Single submitter
Conflicting classifications of pathogenicity 5
- p.Cys19Phe Single submitter spondyloepiphyseal dysplasia ⚠
- p.Cys19Tyr Single submitter
- p.His66= Single submitter Keutel syndrome
- p.Leu78= Single submitter Keutel syndrome
- p.Ser28= Single submitter Keutel syndrome
Benign 11
- c.62-18dup Multiple submitters
- c.-63G>A Multiple submitters Keutel syndrome
- c.*552A>T Multiple submitters Keutel syndrome
- p.Ala8Val Multiple submitters Keutel syndrome
- p.Thr102Ala Multiple submitters Keutel syndrome
- c.170+243_170+244dup Single submitter
- c.170+259del Single submitter
- c.171-295C>T Single submitter
- c.62-10_62-9dup Single submitter
- c.*27T>G Single submitter Keutel syndrome
- c.*339T>C Single submitter Keutel syndrome
Benign/Likely benign 5
- c.61+16C>G Multiple submitters
- c.62-9del Multiple submitters
- p.Asn39His Multiple submitters Keutel syndrome
- p.Asn69= Multiple submitters Keutel syndrome
- p.Lys53Glu Multiple submitters Keutel syndrome
Likely benign 49
- c.171-67T>A Multiple submitters
- c.61+10T>G Multiple submitters
- c.61+147G>A Multiple submitters
- c.61+152A>G Multiple submitters
- c.61+703T>C Multiple submitters
- c.61+738T>C Multiple submitters
- c.62-334T>C Multiple submitters
- c.62-346T>C Multiple submitters
- c.62-656T>C Multiple submitters
- p.Lys98= Multiple submitters
- c.170+243_170+245dup Single submitter
- c.170+243dup Single submitter
- c.170+258del Single submitter
- c.170+264T>G Single submitter
- c.171-16T>G Single submitter
- c.171-20C>T Single submitter
- c.171-3T>C Single submitter
- c.171-64_171-63insGGAAAA Single submitter
- c.171-65del Single submitter
- c.171-70_171-69del Single submitter
- c.61+16C>T Single submitter
- c.61+198G>T Single submitter
- c.61+20T>C Single submitter
- c.62-127G>A Single submitter
- c.62-13_62-12insC Single submitter
- c.62-13_62-9del Single submitter
- c.62-14T>C Single submitter
- c.62-179A>T Single submitter
- c.62-19_62-18del Single submitter
- c.62-19C>T Single submitter
- c.62-576G>A Single submitter
- c.94+17C>T Single submitter
- c.95-18T>C Single submitter
- c.95-19A>G Single submitter
- c.95-294T>C Single submitter
- c.*140T>C Single submitter Keutel syndrome
- p.Ala11= Single submitter
- p.Ala14= Single submitter
- p.Ala90= Single submitter
- p.Arg100Gln Single submitter
- p.Arg37= Single submitter
- p.Asn89= Single submitter
- p.Asp74= Single submitter
- p.Glu56= Single submitter
- p.His23= Single submitter
- p.Tyr29= Single submitter
- p.Tyr82= Single submitter
- c.62-558C>G No assertion criteria MGP-related disorder
- c.-6G>A No assertion criteria MGP-related disorder
Uncertain significance 43
- c.94+5G>A Multiple submitters
- p.Arg61His Multiple submitters ⚠
- p.Gln47Glu Multiple submitters ⚠
- p.Met26Thr Multiple submitters Keutel syndrome ⚠
- p.Tyr76His Multiple submitters MGP-related disorder ⚠
- c.170+5G>C Single submitter
- c.62-638G>C Single submitter
- c.*176C>G Single submitter Keutel syndrome
- c.*531T>C Single submitter Keutel syndrome
- p.Ala12Thr Single submitter ⚠
- p.Ala14Val Single submitter ⚠
- p.Ala52Ser Single submitter ⚠
- p.Ala72Gly Single submitter ⚠
- p.Arg100Ter Single submitter
- p.Arg59Gln Single submitter ⚠
- p.Arg59Pro Single submitter ⚠
- p.Arg61Cys Single submitter
- p.Arg81Pro Single submitter ⚠
- p.Arg94His Single submitter ⚠
- p.Arg99His Single submitter ⚠
- p.Arg99Pro Single submitter ⚠
- p.Asn69His Single submitter ⚠
- p.Asn69Ser Single submitter ⚠
- p.Asp74His Single submitter ⚠
- p.Cys79= Single submitter Keutel syndrome
- p.Cys79Arg Single submitter ⚠
- p.Glu21Val Single submitter Keutel syndrome ⚠
- p.Glu67Lys Single submitter ⚠
- p.Glu71Ter Single submitter
- p.His23Gln Single submitter ⚠
- p.His66Gln Single submitter ⚠
- p.Ile44Thr Single submitter Inborn genetic diseases ⚠
- p.Ile9Leu Single submitter ⚠
- p.Leu7Pro Single submitter ⚠
- p.Met84Leu Single submitter ⚠
- p.Pro33Ala Single submitter ⚠
- p.Pro33Arg Single submitter Inborn genetic diseases ⚠
- p.Pro46Ser Single submitter Inborn genetic diseases ⚠
- p.Ser25Arg Single submitter ⚠
- p.Ter104Arg Single submitter
- p.Trp50Arg Single submitter ⚠
- p.Tyr82fs Single submitter
- p.Val16Ile Single submitter Keutel syndrome ⚠