AIFM1 — 586 ClinVar variants

All ClinVar germline AIFM1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 247 flagged for review →

11 Pathogenic · 3 Pathogenic/Likely pathogenic · 34 Likely pathogenic · 34 Conflicting · 24 Benign · 19 Benign/Likely benign · 217 Likely benign · 244 Uncertain significance

Full AIFM1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 247

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 23

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

Predictors lean, ClinVar uncertain 155

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 155

Predictors split 58

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

All AIFM1 variants

Pathogenic 11

  • c.1164+5G>A No assertion criteria severe X-linked mitochondrial encephalomyopathy
  • c.697-44T>G No assertion criteria spondyloepimetaphyseal dysplasia, Bieganski type
  • p.Arg201del No assertion criteria severe X-linked mitochondrial encephalomyopathy
  • p.Asp237Gly No assertion criteria spondyloepimetaphyseal dysplasia, Bieganski type ⚠
  • p.Gln235His No assertion criteria spondyloepimetaphyseal dysplasia, Bieganski type ⚠
  • p.Gln479Arg No assertion criteria severe X-linked mitochondrial encephalomyopathy
  • p.Gly262Ser No assertion criteria Charcot-Marie-Tooth disease X-linked recessive 4 ⚠
  • p.Gly338Glu No assertion criteria severe X-linked mitochondrial encephalomyopathy
  • p.Pro488Leu No assertion criteria Auditory neuropathy spectrum disorder ⚠
  • p.Thr141Ile No assertion criteria Charcot-Marie-Tooth disease X-linked recessive 4
  • p.Thr260Ala No assertion criteria Deafness, X-linked 5

Pathogenic/Likely pathogenic 3

  • p.Arg422Gln Multiple submitters Deafness, X-linked 5 ⚠
  • p.Arg422Trp Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Met340Thr Multiple submitters sensorineural hearing loss disorder

Likely pathogenic 34

Conflicting classifications of pathogenicity 34

  • c.1075+4G>C Single submitter Inborn genetic diseases
  • c.1770+12T>C Single submitter spondyloepimetaphyseal dysplasia, Bieganski type
  • c.-185G>A Single submitter severe X-linked mitochondrial encephalomyopathy
  • c.-90G>C Single submitter severe X-linked mitochondrial encephalomyopathy
  • p.Ala114Thr Single submitter Inborn genetic diseases ⚠
  • p.Ala318Thr Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Ala549= Single submitter Inborn genetic diseases
  • p.Ala549Val Single submitter spondyloepimetaphyseal dysplasia, Bieganski type ⚠
  • p.Arg151Trp Single submitter Deafness, X-linked 5 ⚠
  • p.Arg298Gln Single submitter Deafness, X-linked 5 ⚠
  • p.Arg3Gln Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Arg463Ile Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Asn186Asp Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Asn403Ile Single submitter Inborn genetic diseases
  • p.Asp240= Single submitter AIFM1-related hypomyelination with spondylometaphyseal dysplasia
  • p.Glu336Lys Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Glu346Lys Single submitter Inborn genetic diseases
  • p.Glu47Asp Single submitter Inborn genetic diseases ⚠
  • p.Gly58= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu344Phe Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Lys86Asn Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Met242Val Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Met340Ile Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Pro169Leu Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Pro544Leu Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Pro548Leu Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Pro548Ser Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Ser349Gly Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Ser57Cys Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Thr304Met Single submitter Inborn genetic diseases ⚠
  • p.Val555Ile Single submitter Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Glu493Val No assertion criteria Charcot-Marie-Tooth disease X-linked recessive 4 ⚠
  • p.Gly308Glu No assertion criteria Charcot-Marie-Tooth disease X-linked recessive 4 ⚠
  • p.Val243Leu No assertion criteria Charcot-Marie-Tooth disease X-linked recessive 4 ⚠

Benign 24

Benign/Likely benign 19

  • c.1075+20A>G Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.606-15C>T Multiple submitters Charcot-Marie-Tooth disease
  • c.968-14T>A Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.968-358C>T Multiple submitters
  • p.Ala114Val Multiple submitters Inborn genetic diseases
  • p.Ala316= Multiple submitters Inborn genetic diseases
  • p.Ala472= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Asp594= Multiple submitters Charcot-Marie-Tooth disease
  • p.Glu122= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Glu537Lys Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.His611= Multiple submitters Charcot-Marie-Tooth disease X-linked recessive 4
  • p.Leu486= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Lys199= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Pro18= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Pro45Arg Multiple submitters combined oxidative phosphorylation deficiency
  • p.Pro548= Multiple submitters severe X-linked mitochondrial encephalomyopathy
  • p.Ser349= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Thr409= Multiple submitters severe X-linked mitochondrial encephalomyopathy
  • p.Tyr443= Multiple submitters Charcot-Marie-Tooth Neuropathy X

Likely benign 217

  • c.1305+9G>T Multiple submitters combined oxidative phosphorylation deficiency
  • c.1448+14G>C Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.1448+8T>C Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.1449-5_1449-3del Multiple submitters combined oxidative phosphorylation deficiency
  • c.1574-20G>T Multiple submitters Charcot-Marie-Tooth disease
  • c.1771-13C>T Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.249+1258T>C Multiple submitters Inborn genetic diseases
  • c.249+1424T>C Multiple submitters
  • c.249+18G>A Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.250-118A>G Multiple submitters
  • c.349+8T>G Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.474+13T>G Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.605+14T>C Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.606-100C>T Multiple submitters
  • c.696+16G>A Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.781+202C>T Multiple submitters
  • c.781+85A>G Multiple submitters
  • c.782-124C>T Multiple submitters
  • c.782-4C>A Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.967+119A>T Multiple submitters
  • c.967+133T>C Multiple submitters
  • c.968-161C>T Multiple submitters
  • p.Ala113= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Ala114= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Ala128Val Multiple submitters combined oxidative phosphorylation deficiency
  • p.Arg21= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Arg324Gln Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Asn246= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Asn96Ser Multiple submitters combined oxidative phosphorylation deficiency
  • p.Asp515Asn Multiple submitters Inborn genetic diseases ⚠
  • p.Glu493= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Glu92Lys Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Gly320= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.His598= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Ile64= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Leu267= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Lys199Asn Multiple submitters Charcot-Marie-Tooth Neuropathy X ⚠
  • p.Lys571= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • p.Ser313= Multiple submitters Charcot-Marie-Tooth disease
  • p.Ser371= Multiple submitters combined oxidative phosphorylation deficiency
  • p.Ser536= Multiple submitters Charcot-Marie-Tooth Neuropathy X
  • c.106+10C>T Single submitter combined oxidative phosphorylation deficiency
  • c.106+12A>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.106+19G>A Single submitter combined oxidative phosphorylation deficiency
  • c.1075+170C>T Single submitter
  • c.1075+18A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1076-10G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1076-118A>G Single submitter
  • c.1076-14G>C Single submitter combined oxidative phosphorylation deficiency
  • c.1076-6T>C Single submitter combined oxidative phosphorylation deficiency
  • c.1076-7T>C Single submitter combined oxidative phosphorylation deficiency
  • c.1164+11A>C Single submitter combined oxidative phosphorylation deficiency
  • c.1164+9G>A Single submitter combined oxidative phosphorylation deficiency
  • c.1305+17A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1305+8_1305+9del Single submitter combined oxidative phosphorylation deficiency
  • c.1306-12T>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1306-17T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1306-4A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1448+11T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1448+149C>T Single submitter
  • c.1448+16C>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1448+215A>G Single submitter
  • c.1449-10C>G Single submitter combined oxidative phosphorylation deficiency
  • c.1449-60A>G Single submitter
  • c.1573+11C>T Single submitter combined oxidative phosphorylation deficiency
  • c.1573+8A>G Single submitter combined oxidative phosphorylation deficiency
  • c.1574-14G>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1574-15G>T Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1770+11G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1770+146G>A Single submitter
  • c.1770+7G>T Single submitter combined oxidative phosphorylation deficiency
  • c.1771-11C>T Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1771-12T>C Single submitter combined oxidative phosphorylation deficiency
  • c.1771-14T>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1771-14T>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1771-16_1771-13del Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1771-8T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.1771-9C>T Single submitter
  • c.249+1297G>A Single submitter
  • c.249+1313G>A Single submitter
  • c.249+17C>T Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.249+20G>A Single submitter combined oxidative phosphorylation deficiency
  • c.250-5C>T Single submitter combined oxidative phosphorylation deficiency
  • c.250-6C>A Single submitter combined oxidative phosphorylation deficiency
  • c.250-9G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.250-9G>C Single submitter combined oxidative phosphorylation deficiency
  • c.349+13_349+14insTCCCTAC Single submitter combined oxidative phosphorylation deficiency
  • c.349+257C>T Single submitter
  • c.350-16G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.474+8G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.475-15T>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.475-17G>C Single submitter combined oxidative phosphorylation deficiency
  • c.475-5T>C Single submitter combined oxidative phosphorylation deficiency
  • c.475-8G>A Single submitter combined oxidative phosphorylation deficiency
  • c.605+13A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.605+262T>G Single submitter
  • c.605+9G>T Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.606-12T>C Single submitter combined oxidative phosphorylation deficiency
  • c.606-14T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.606-15C>G Single submitter combined oxidative phosphorylation deficiency
  • c.606-17CT[2] Single submitter combined oxidative phosphorylation deficiency
  • c.606-19C>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.606-6A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.696+15C>T Single submitter combined oxidative phosphorylation deficiency
  • c.696+20_696+22del Single submitter combined oxidative phosphorylation deficiency
  • c.697-11G>T Single submitter combined oxidative phosphorylation deficiency
  • c.697-13G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.697-192G>A Single submitter
  • c.697-39C>A Single submitter
  • c.697-53T>C Single submitter
  • c.697-7G>A Single submitter combined oxidative phosphorylation deficiency
  • c.781+19G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.781+9T>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.781+9T>C Single submitter combined oxidative phosphorylation deficiency
  • c.782-18T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.859-13T>C Single submitter combined oxidative phosphorylation deficiency
  • c.859-146C>T Single submitter
  • c.967+10G>A Single submitter
  • c.967+15G>A Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.967+15G>T Single submitter combined oxidative phosphorylation deficiency
  • c.967+18A>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.967+300T>C Single submitter
  • c.967+317A>G Single submitter
  • c.967+325C>T Single submitter
  • c.967+326T>G Single submitter
  • c.967+530del Single submitter
  • c.967+548T>A Single submitter
  • c.967+9T>C Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.968-17C>G Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.968-340A>G Single submitter
  • c.968-638C>T Single submitter
  • c.968-8C>T Single submitter Charcot-Marie-Tooth Neuropathy X
  • c.*160A>G Single submitter
  • c.*20C>A Single submitter Charcot-Marie-Tooth disease
  • p.Ala143= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Ala214= Single submitter combined oxidative phosphorylation deficiency
  • p.Ala259= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Ala273= Single submitter combined oxidative phosphorylation deficiency
  • p.Ala318= Single submitter combined oxidative phosphorylation deficiency
  • p.Ala458= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Ala511= Single submitter combined oxidative phosphorylation deficiency
  • p.Ala520Val Single submitter combined oxidative phosphorylation deficiency
  • p.Ala9= Single submitter combined oxidative phosphorylation deficiency
  • p.Arg29= Single submitter combined oxidative phosphorylation deficiency
  • p.Arg387= Single submitter combined oxidative phosphorylation deficiency
  • p.Arg569= Single submitter combined oxidative phosphorylation deficiency
  • p.Asn366Ser Single submitter combined oxidative phosphorylation deficiency
  • p.Asn580= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Asp184= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Asp216= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Asp385= Single submitter combined oxidative phosphorylation deficiency
  • p.Gln110Lys Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gln14= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gln250= Single submitter
  • p.Gln370= Single submitter combined oxidative phosphorylation deficiency
  • p.Glu276= Single submitter combined oxidative phosphorylation deficiency
  • p.Glu336= Single submitter combined oxidative phosphorylation deficiency
  • p.Glu531= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gly411Asp Single submitter combined oxidative phosphorylation deficiency ⚠
  • p.Gly491= Single submitter combined oxidative phosphorylation deficiency
  • p.Gly561Ser Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gly575= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gly58Val Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Gly62= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Ile565= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu104= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu16= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu179= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu348= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu379= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu383= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu400= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu412= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu464= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Leu578= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu607= Single submitter combined oxidative phosphorylation deficiency
  • p.Leu7= Single submitter combined oxidative phosphorylation deficiency
  • p.Lys109= Single submitter combined oxidative phosphorylation deficiency
  • p.Lys194Arg Single submitter Inborn genetic diseases
  • p.Lys322= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Lys593= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Phe290= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro106= Single submitter combined oxidative phosphorylation deficiency
  • p.Pro166= Single submitter combined oxidative phosphorylation deficiency
  • p.Pro169= Single submitter combined oxidative phosphorylation deficiency
  • p.Pro28= Single submitter combined oxidative phosphorylation deficiency
  • p.Pro335= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro345= Single submitter combined oxidative phosphorylation deficiency
  • p.Pro475= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro488= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro544Ser Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro554= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Pro586= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Thr105Ala Single submitter combined oxidative phosphorylation deficiency
  • p.Thr22= Single submitter combined oxidative phosphorylation deficiency
  • p.Thr252= Single submitter combined oxidative phosphorylation deficiency
  • p.Thr282= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Thr534= Single submitter
  • p.Tyr492Cys Single submitter combined oxidative phosphorylation deficiency
  • p.Tyr560= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val159= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val17= Single submitter combined oxidative phosphorylation deficiency
  • p.Val187Ile Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val212= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val25= Single submitter combined oxidative phosphorylation deficiency
  • p.Val300= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val372= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val395= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val452= Single submitter combined oxidative phosphorylation deficiency
  • p.Val550= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val572= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val573= Single submitter Charcot-Marie-Tooth Neuropathy X
  • p.Val574= Single submitter combined oxidative phosphorylation deficiency
  • c.782-9T>C No assertion criteria AIFM1-related disorder
  • c.968-349C>G No assertion criteria AIFM1-related disorder
  • c.-119A>G No assertion criteria AIFM1-related disorder
  • c.-133G>A No assertion criteria AIFM1-related disorder

Uncertain significance 244