SLC40A1 — 334 ClinVar variants

All ClinVar germline SLC40A1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 142 flagged for review →

18 Pathogenic · 6 Pathogenic/Likely pathogenic · 18 Likely pathogenic · 18 Conflicting · 23 Benign · 8 Benign/Likely benign · 108 Likely benign · 135 Uncertain significance

Full SLC40A1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 142

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 12

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

Predictors lean, ClinVar uncertain 78

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

Predictors split 47

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

All SLC40A1 variants

Pathogenic 18

Pathogenic/Likely pathogenic 6

  • p.Arg178Gln Multiple submitters hemochromatosis type 4
  • p.Arg88Gly Multiple submitters hemochromatosis type 4
  • p.Arg88Thr Multiple submitters hemochromatosis type 4
  • p.Gly204Ser Multiple submitters SLC40A1-related disorder ⚠
  • p.Gly80Ser Multiple submitters hemochromatosis type 4
  • p.Val162del Multiple submitters SLC40A1-related disorder

Likely pathogenic 18

Conflicting classifications of pathogenicity 18

Benign 23

Benign/Likely benign 8

  • c.388-14T>A Multiple submitters hemochromatosis type 4
  • c.760+14A>G Multiple submitters hemochromatosis type 4
  • c.-8C>G Multiple submitters hemochromatosis type 4
  • p.Ala552Thr Multiple submitters hemochromatosis type 4
  • p.Arg561Gly Multiple submitters hemochromatosis type 4
  • p.Gln248His Multiple submitters hemochromatosis type 4
  • p.Ile418Val Multiple submitters hemochromatosis type 4
  • p.Ser401= Multiple submitters hemochromatosis type 4

Likely benign 108

  • c.271+10_271+12del Multiple submitters hemochromatosis type 4
  • p.Cys132= Multiple submitters hemochromatosis type 4
  • p.Ile203= Multiple submitters hemochromatosis type 4
  • p.Lys240del Multiple submitters hemochromatosis type 4
  • c.111+13G>A Single submitter
  • c.112-19T>C Single submitter hemochromatosis type 4
  • c.112-7A>C Single submitter hemochromatosis type 4
  • c.1402+10C>A Single submitter hemochromatosis type 4
  • c.1402+20A>G Single submitter hemochromatosis type 4
  • c.1403-13del Single submitter hemochromatosis type 4
  • c.1403-13T>A Single submitter hemochromatosis type 4
  • c.1403-7A>G Single submitter hemochromatosis type 4
  • c.271+10G>A Single submitter hemochromatosis type 4
  • c.271+14_271+15insTA Single submitter hemochromatosis type 4
  • c.271+16T>C Single submitter hemochromatosis type 4
  • c.272-17T>C Single submitter hemochromatosis type 4
  • c.387+12A>G Single submitter hemochromatosis type 4
  • c.387+8C>G Single submitter hemochromatosis type 4
  • c.388-17T>G Single submitter
  • c.43+15C>G Single submitter hemochromatosis type 4
  • c.43+17dup Single submitter hemochromatosis type 4
  • c.43+20A>G Single submitter
  • c.43+7G>A Single submitter
  • c.43+9C>T Single submitter hemochromatosis type 4
  • c.44-10_44-9del Single submitter hemochromatosis type 4
  • c.44-10G>T Single submitter hemochromatosis type 4
  • c.44-15C>T Single submitter hemochromatosis type 4
  • c.44-20C>A Single submitter hemochromatosis type 4
  • c.44-4G>T Single submitter hemochromatosis type 4
  • c.44-8C>G Single submitter hemochromatosis type 4
  • c.514+16C>T Single submitter hemochromatosis type 4
  • c.514+19T>G Single submitter hemochromatosis type 4
  • c.514+20T>C Single submitter hemochromatosis type 4
  • c.515-15C>A Single submitter hemochromatosis type 4
  • c.515-4C>T Single submitter hemochromatosis type 4
  • c.515-9C>T Single submitter hemochromatosis type 4
  • c.760+11C>T Single submitter hemochromatosis type 4
  • c.760+15A>G Single submitter hemochromatosis type 4
  • c.761-14T>C Single submitter hemochromatosis type 4
  • c.761-17G>T Single submitter
  • c.761-19T>A Single submitter hemochromatosis type 4
  • c.-14G>C Single submitter hemochromatosis type 4
  • p.Ala175= Single submitter hemochromatosis type 4
  • p.Ala188= Single submitter hemochromatosis type 4
  • p.Ala24= Single submitter hemochromatosis type 4
  • p.Ala310= Single submitter hemochromatosis type 4
  • p.Ala4= Single submitter hemochromatosis type 4
  • p.Ala45= Single submitter hemochromatosis type 4
  • p.Ala460= Single submitter hemochromatosis type 4
  • p.Ala465= Single submitter hemochromatosis type 4
  • p.Ala566= Single submitter hemochromatosis type 4
  • p.Arg11= Single submitter hemochromatosis type 4
  • p.Arg293= Single submitter hemochromatosis type 4
  • p.Arg296= Single submitter hemochromatosis type 4
  • p.Arg371Trp Single submitter hemochromatosis type 4 ⚠
  • p.Arg409Gly Single submitter hemochromatosis type 4
  • p.Asn304= Single submitter hemochromatosis type 4
  • p.Asp157= Single submitter hemochromatosis type 4
  • p.Cys13= Single submitter hemochromatosis type 4
  • p.Cys217= Single submitter hemochromatosis type 4
  • p.Gln335= Single submitter hemochromatosis type 4
  • p.Glu119= Single submitter hemochromatosis type 4
  • p.Glu219= Single submitter hemochromatosis type 4
  • p.Glu275= Single submitter hemochromatosis type 4
  • p.Glu277= Single submitter hemochromatosis type 4
  • p.Glu416= Single submitter hemochromatosis type 4
  • p.Gly107= Single submitter hemochromatosis type 4
  • p.Gly210= Single submitter hemochromatosis type 4
  • p.Gly336= Single submitter hemochromatosis type 4
  • p.Gly373= Single submitter hemochromatosis type 4
  • p.Gly377= Single submitter hemochromatosis type 4
  • p.Gly461= Single submitter hemochromatosis type 4
  • p.Gly534= Single submitter hemochromatosis type 4
  • p.Gly65= Single submitter hemochromatosis type 4
  • p.Ile109= Single submitter hemochromatosis type 4
  • p.Ile327= Single submitter hemochromatosis type 4
  • p.Ile389= Single submitter hemochromatosis type 4
  • p.Ile408= Single submitter hemochromatosis type 4
  • p.Ile78= Single submitter hemochromatosis type 4
  • p.Leu223= Single submitter
  • p.Leu246= Single submitter hemochromatosis type 4
  • p.Leu27= Single submitter hemochromatosis type 4
  • p.Leu309= Single submitter hemochromatosis type 4
  • p.Leu369= Single submitter hemochromatosis type 4
  • p.Leu457= Single submitter hemochromatosis type 4
  • p.Leu523= Single submitter hemochromatosis type 4
  • p.Phe316= Single submitter hemochromatosis type 4
  • p.Pro189= Single submitter hemochromatosis type 4
  • p.Pro282= Single submitter hemochromatosis type 4
  • p.Pro397= Single submitter hemochromatosis type 4
  • p.Pro447= Single submitter hemochromatosis type 4
  • p.Ser102= Single submitter hemochromatosis type 4
  • p.Ser23= Single submitter hemochromatosis type 4
  • p.Ser349= Single submitter hemochromatosis type 4
  • p.Ser417= Single submitter hemochromatosis type 4
  • p.Ser471= Single submitter hemochromatosis type 4
  • p.Ser95= Single submitter
  • p.Thr2= Single submitter hemochromatosis type 4
  • p.Thr230= Single submitter hemochromatosis type 4
  • p.Thr428= Single submitter hemochromatosis type 4
  • p.Thr475= Single submitter hemochromatosis type 4
  • p.Tyr220= Single submitter hemochromatosis type 4
  • p.Tyr331= Single submitter hemochromatosis type 4
  • p.Val46= Single submitter hemochromatosis type 4
  • p.Val511= Single submitter hemochromatosis type 4
  • p.Val524= Single submitter hemochromatosis type 4
  • p.Val97= Single submitter hemochromatosis type 4
  • p.Val98= Single submitter hemochromatosis type 4

Uncertain significance 135