MC4R — 288 ClinVar variants

All ClinVar germline MC4R variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 156 flagged for review →

23 Pathogenic · 14 Pathogenic/Likely pathogenic · 28 Likely pathogenic · 29 Conflicting · 3 Benign · 5 Benign/Likely benign · 29 Likely benign · 157 Uncertain significance

Full MC4R gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 156

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 5

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 16

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

Predictors lean, ClinVar uncertain 91

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

Predictors split 44

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

All MC4R variants

Pathogenic 23

  • p.Asp90Asn Multiple submitters BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Cys271Tyr Multiple submitters MC4R-related disorder
  • p.Ile301Thr Multiple submitters
  • p.Leu211fs Multiple submitters MC4R-related disorder
  • p.Tyr35Ter Multiple submitters obesity disorder
  • p.Tyr80Ter Multiple submitters
  • p.Asp146fs Single submitter
  • p.Cys277Ter Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Gly34fs Single submitter
  • p.Ile102Thr Single submitter Early onset severe obesity
  • p.Ile69Arg Single submitter Obesity, autosomal dominant
  • p.Pro275Ser Single submitter inherited obesity ⚠
  • p.Ser136Phe Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Ser19fs Single submitter MC4R-related disorder
  • p.Tyr287Ter Single submitter obesity due to melanocortin 4 receptor deficiency
  • p.Ala89_Val93del No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Asn17fs No assertion criteria MC4R-related disorder
  • p.Asn97Asp No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20 ⚠
  • p.Gln115fs No assertion criteria MC4R-related disorder
  • p.Ile102Ser No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20 ⚠
  • p.Phe280Leu No assertion criteria obesity disorder ⚠
  • p.Ser58Cys No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Thr246fs No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20

Pathogenic/Likely pathogenic 14

  • p.Arg165Gln Multiple submitters obesity disorder ⚠
  • p.Arg165Trp Multiple submitters obesity due to melanocortin 4 receptor deficiency
  • p.Cys271Arg Multiple submitters BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Gln156Ter Multiple submitters obesity disorder
  • p.Glu61Lys Multiple submitters obesity due to melanocortin 4 receptor deficiency
  • p.Gly181Asp Multiple submitters BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Ile251fs Multiple submitters obesity disorder
  • p.Ile316Ser Multiple submitters BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Leu140fs Multiple submitters inherited obesity
  • p.Phe280fs Multiple submitters obesity due to melanocortin 4 receptor deficiency
  • p.Ser116fs Multiple submitters obesity due to melanocortin 4 receptor deficiency
  • p.Ser58fs Multiple submitters BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Tyr276_Cys277delinsTer Multiple submitters Early onset severe obesity
  • p.Ile125Lys No assertion criteria MC4R-related disorder

Likely pathogenic 28

  • p.Ala303Thr Single submitter Early onset severe obesity ⚠
  • p.Arg236fs Single submitter obesity due to melanocortin 4 receptor deficiency
  • p.Asn62Ser Single submitter obesity due to melanocortin 4 receptor deficiency
  • p.Cys279fs Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Gln273Ter Single submitter
  • p.Gln43Ter Single submitter Early onset severe obesity
  • p.Glu308Ter Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Ile121Thr Single submitter Early onset severe obesity ⚠
  • p.Ile125Asn Single submitter Early onset severe obesity
  • p.Leu86Phe Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Met161Thr Single submitter Early onset severe obesity ⚠
  • p.Phe284Leu Single submitter Early onset severe obesity ⚠
  • p.Pro260Gln Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Pro272Leu Single submitter ⚠
  • p.Ser180fs Single submitter BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Ser180Pro Single submitter obesity disorder ⚠
  • p.Ser270Phe Single submitter Early onset severe obesity ⚠
  • p.Ser94Asn Single submitter
  • p.Ser99Ter Single submitter MC4R-related disorder
  • p.Tyr212Cys Single submitter Early onset severe obesity
  • p.Tyr276Ter Single submitter Early onset severe obesity
  • p.Tyr302Ter Single submitter obesity due to melanocortin 4 receptor deficiency
  • p.Gln43Lys No assertion criteria obesity disorder ⚠
  • p.Met91Arg No assertion criteria obesity disorder
  • p.Phe51Leu No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20 ⚠
  • p.Ser109fs No assertion criteria BODY MASS INDEX QUANTITATIVE TRAIT LOCUS 20
  • p.Ser139Arg No assertion criteria adipositas
  • p.Ser20fs No assertion criteria MC4R-related disorder

Conflicting classifications of pathogenicity 29

Benign 3

Benign/Likely benign 5

Likely benign 29

  • p.Cys279= Multiple submitters
  • p.Arg236Cys Single submitter Early onset severe obesity
  • p.Arg305= Single submitter
  • p.His158= Single submitter
  • p.Ser99= Single submitter
  • p.Tyr212= Single submitter
  • c.-22A>T No assertion criteria MC4R-related disorder
  • c.-32A>G No assertion criteria MC4R-related disorder
  • c.*9A>G No assertion criteria MC4R-related disorder
  • p.Ala219= No assertion criteria MC4R-related disorder
  • p.Ala227= No assertion criteria MC4R-related disorder
  • p.Asp189= No assertion criteria MC4R-related disorder
  • p.Gln43= No assertion criteria MC4R-related disorder
  • p.Gly231= No assertion criteria MC4R-related disorder
  • p.Gly39= No assertion criteria MC4R-related disorder
  • p.Gly8= No assertion criteria MC4R-related disorder
  • p.His10= No assertion criteria MC4R-related disorder
  • p.His283= No assertion criteria MC4R-related disorder
  • p.Ile125= No assertion criteria MC4R-related disorder
  • p.Ile151= No assertion criteria MC4R-related disorder
  • p.Ile269= No assertion criteria MC4R-related disorder
  • p.Ile291= No assertion criteria MC4R-related disorder
  • p.Ile297= No assertion criteria MC4R-related disorder
  • p.Leu13= No assertion criteria MC4R-related disorder
  • p.Leu23= No assertion criteria MC4R-related disorder
  • p.Leu54= No assertion criteria MC4R-related disorder
  • p.Pro230= No assertion criteria MC4R-related disorder
  • p.Tyr153= No assertion criteria MC4R-related disorder
  • p.Val278= No assertion criteria MC4R-related disorder

Uncertain significance 157