VMA12 — 66 ClinVar variants
All ClinVar germline VMA12 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 35 flagged for review →
3 Pathogenic · 1 Pathogenic/Likely pathogenic · 1 Likely pathogenic · 1 Conflicting · 8 Benign · 1 Benign/Likely benign · 17 Likely benign · 34 Uncertain significance
Full VMA12 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 35
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 vs ClinVar 1
ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.
Predictors lean, ClinVar uncertain 24
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- VMA12 p.Ala7Thr Uncertain significance Multiple submitters
-
VMA12 p.Arg120His
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
VMA12 p.Arg178Trp
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
VMA12 p.Asp126His
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
VMA12 p.Ala176Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Ala176Val Uncertain significance Single submitter
-
VMA12 p.Ala181Gly
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Ala7Val Uncertain significance Single submitter
- VMA12 p.Arg117Gln Uncertain significance Single submitter
- VMA12 p.Arg199Gln Uncertain significance Single submitter
- VMA12 p.Arg25Gln Uncertain significance Single submitter
- VMA12 p.Arg25Leu Uncertain significance Single submitter
- VMA12 p.Glu114Asp Uncertain significance Single submitter
-
VMA12 p.Glu193Lys
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Gly190Asp Uncertain significance Single submitter
- VMA12 p.His77Arg Uncertain significance Single submitter
-
VMA12 p.Leu143Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
VMA12 p.Leu34Phe
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Leu6Phe Uncertain significance Single submitter
-
VMA12 p.Leu6Val
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Met201Ile Uncertain significance Single submitter
-
VMA12 p.Ser177Leu
Uncertain significance
Single submitter
Inborn genetic diseases
-
VMA12 p.Val196Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
VMA12 p.Val90Ile
Uncertain significance
Single submitter
Inborn genetic diseases
Predictors split 10
The independent predictors disagree with each other — read with care.
-
VMA12 p.Arg31Pro
Pathogenic/Likely pathogenic
Multiple submitters
TMEM199-related disorder
-
VMA12 p.Asn152Ser
Uncertain significance
Multiple submitters
Inborn genetic diseases
- VMA12 p.Ala37Val Uncertain significance Single submitter
-
VMA12 p.Arg117Trp
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Arg95Gln Uncertain significance Single submitter
-
VMA12 p.Asn112Ser
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Leu15Ser Benign Single submitter
-
VMA12 p.Ser72Phe
Uncertain significance
Single submitter
Inborn genetic diseases
- VMA12 p.Val198Leu Uncertain significance Single submitter
-
VMA12 p.Ala14Pro
Pathogenic
No assertion criteria
TMEM199-CDG
All VMA12 variants
Pathogenic 3
- p.Leu5fs Single submitter
- c.376-1G>A No assertion criteria TMEM199-CDG
- p.Ala14Pro No assertion criteria TMEM199-CDG ⚠
Pathogenic/Likely pathogenic 1
- p.Arg31Pro Multiple submitters TMEM199-related disorder ⚠
Conflicting classifications of pathogenicity 1
- p.Val12= Single submitter
Benign 8
- c.375+18A>G Multiple submitters
- p.Leu166Val Multiple submitters
- p.Val122Ile Multiple submitters
- p.Val158Ile Multiple submitters
- c.375+233dup Single submitter
- c.376-19T>A Single submitter
- c.419-11C>T Single submitter
- p.Leu15Ser Single submitter ⚠
Benign/Likely benign 1
- p.Tyr86His Multiple submitters
Likely benign 17
- c.375+125G>A Multiple submitters
- c.532-114C>T Multiple submitters
- c.*207T>C Multiple submitters
- c.375+8C>T Single submitter
- c.376-10T>C Single submitter
- c.376-11C>G Single submitter
- c.376-17C>T Single submitter
- c.419-6C>G Single submitter
- c.531+14GGGCA[3] Single submitter
- c.532-10C>T Single submitter
- p.Glu113= Single submitter
- p.Gly8= Single submitter
- p.Ile150= Single submitter
- p.Leu180= Single submitter
- p.Leu183= Single submitter
- p.Lys138= Single submitter
- c.-7del No assertion criteria TMEM199-related disorder
Uncertain significance 34
- p.Ala7Thr Multiple submitters ⚠
- p.Arg120His Multiple submitters Inborn genetic diseases ⚠
- p.Arg178Trp Multiple submitters Inborn genetic diseases ⚠
- p.Arg199Gly Multiple submitters Inborn genetic diseases
- p.Asn152Ser Multiple submitters Inborn genetic diseases ⚠
- p.Asp126His Multiple submitters Inborn genetic diseases ⚠
- c.212-7T>G Single submitter
- p.Ala176Ser Single submitter Inborn genetic diseases ⚠
- p.Ala176Val Single submitter ⚠
- p.Ala181Gly Single submitter Inborn genetic diseases ⚠
- p.Ala37Val Single submitter ⚠
- p.Ala7Val Single submitter ⚠
- p.Arg117Gln Single submitter ⚠
- p.Arg117Trp Single submitter Inborn genetic diseases ⚠
- p.Arg199Gln Single submitter ⚠
- p.Arg25Gln Single submitter ⚠
- p.Arg25Leu Single submitter ⚠
- p.Arg95Gln Single submitter ⚠
- p.Asn112Ser Single submitter Inborn genetic diseases ⚠
- p.Glu114Asp Single submitter ⚠
- p.Glu193Lys Single submitter Inborn genetic diseases ⚠
- p.Gly190Asp Single submitter ⚠
- p.His77Arg Single submitter ⚠
- p.Leu143Ser Single submitter Inborn genetic diseases ⚠
- p.Leu34Phe Single submitter Inborn genetic diseases ⚠
- p.Leu6Phe Single submitter ⚠
- p.Leu6Val Single submitter Inborn genetic diseases ⚠
- p.Met201Ile Single submitter ⚠
- p.Ser177Leu Single submitter Inborn genetic diseases ⚠
- p.Ser72Phe Single submitter Inborn genetic diseases ⚠
- p.Thr156Met Single submitter Inborn genetic diseases
- p.Val196Ile Single submitter Inborn genetic diseases ⚠
- p.Val198Leu Single submitter ⚠
- p.Val90Ile Single submitter Inborn genetic diseases ⚠