SLC25A1 — 242 ClinVar variants
All ClinVar germline SLC25A1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 73 flagged for review →
8 Pathogenic · 4 Pathogenic/Likely pathogenic · 12 Likely pathogenic · 7 Conflicting · 9 Benign · 6 Benign/Likely benign · 100 Likely benign · 96 Uncertain significance
Full SLC25A1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 73
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.
-
SLC25A1 p.Gly130Asp
Conflicting
Single submitter
D,L-2-hydroxyglutaric aciduria
Predictors lean, ClinVar uncertain 65
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
-
SLC25A1 p.Ala11Val
Uncertain significance
Multiple submitters
Inborn genetic diseases
- SLC25A1 p.Ala12Thr Uncertain significance Multiple submitters
-
SLC25A1 p.Ala131Val
Uncertain significance
Multiple submitters
2-hydroxyglutaric aciduria
-
SLC25A1 p.Arg210Gln
Uncertain significance
Multiple submitters
Inborn genetic diseases
- SLC25A1 p.Arg257Gln Uncertain significance Multiple submitters
-
SLC25A1 p.Asn213Ser
Uncertain significance
Multiple submitters
2-hydroxyglutaric aciduria
-
SLC25A1 p.Asp69Tyr
Uncertain significance
Multiple submitters
myasthenic syndrome, congenital, 23, presynaptic
-
SLC25A1 p.Gly263Ser
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SLC25A1 p.Lys255Arg
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SLC25A1 p.Pro217Ser
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SLC25A1 p.Pro281Ser
Uncertain significance
Multiple submitters
Inborn genetic diseases
- SLC25A1 p.Pro7Ser Uncertain significance Multiple submitters
- SLC25A1 p.Thr246Asn Uncertain significance Multiple submitters
- SLC25A1 p.Tyr64Asp Uncertain significance Multiple submitters
- SLC25A1 p.Val201Ile Uncertain significance Multiple submitters
- SLC25A1 p.Ala115Gly Uncertain significance Single submitter
- SLC25A1 p.Ala14Ser Uncertain significance Single submitter
- SLC25A1 p.Ala20Thr Uncertain significance Single submitter
-
SLC25A1 p.Ala274Glu
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Ala274Thr Uncertain significance Single submitter
- SLC25A1 p.Ala35Val Uncertain significance Single submitter
- SLC25A1 p.Ala6Gly Uncertain significance Single submitter
- SLC25A1 p.Arg113Gln Uncertain significance Single submitter
-
SLC25A1 p.Arg247Pro
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Arg282Pro Uncertain significance Single submitter
- SLC25A1 p.Arg285Trp Uncertain significance Single submitter
-
SLC25A1 p.Arg65Gln
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Asn238Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Asp212Asn
Uncertain significance
Single submitter
myasthenic syndrome, congenital, 23, presynaptic
- SLC25A1 p.Asp311Glu Uncertain significance Single submitter
-
SLC25A1 p.Cys262Trp
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Glu174Gln
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Gly224Ala Uncertain significance Single submitter
- SLC25A1 p.Gly263Arg Uncertain significance Single submitter
- SLC25A1 p.Gly33Asp Uncertain significance Single submitter
- SLC25A1 p.Gly37Ser Uncertain significance Single submitter
-
SLC25A1 p.Gly86Cys
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.His152Pro
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.His254Arg
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.His60Gln Uncertain significance Single submitter
- SLC25A1 p.His78Arg Uncertain significance Single submitter
- SLC25A1 p.Ile229Asn Uncertain significance Single submitter
- SLC25A1 p.Ile38Met Uncertain significance Single submitter
- SLC25A1 p.Ile67Val Uncertain significance Single submitter
- SLC25A1 p.Leu108Phe Uncertain significance Single submitter
- SLC25A1 p.Leu119Arg Uncertain significance Single submitter
-
SLC25A1 p.Leu125Pro
Uncertain significance
Single submitter
myasthenic syndrome, congenital, 23, presynaptic
-
SLC25A1 p.Leu272Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Met104Ile
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Met218Val Uncertain significance Single submitter
-
SLC25A1 p.Phe150Ser
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Phe199Cys
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Phe44Leu Uncertain significance Single submitter
- SLC25A1 p.Pro240Ser Uncertain significance Single submitter
- SLC25A1 p.Ser234Arg Uncertain significance Single submitter
- SLC25A1 p.Thr180Met Uncertain significance Single submitter
-
SLC25A1 p.Thr185Ile
Uncertain significance
Single submitter
Inborn genetic diseases
-
SLC25A1 p.Thr239Ala
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Thr259Met Uncertain significance Single submitter
-
SLC25A1 p.Thr310Ala
Uncertain significance
Single submitter
2-hydroxyglutaric aciduria
- SLC25A1 p.Thr310Met Uncertain significance Single submitter
- SLC25A1 p.Val172Met Uncertain significance Single submitter
- SLC25A1 p.Val280Ile Uncertain significance Single submitter
- SLC25A1 p.Ala233Thr Uncertain significance No assertion criteria
- SLC25A1 p.Pro96Ser Uncertain significance No assertion criteria
Predictors split 7
The independent predictors disagree with each other — read with care.
- SLC25A1 p.Arg173Gln Uncertain significance Multiple submitters
-
SLC25A1 p.Gln265Leu
Uncertain significance
Multiple submitters
Inborn genetic diseases
-
SLC25A1 p.Tyr297His
Uncertain significance
Multiple submitters
2-hydroxyglutaric aciduria
- SLC25A1 p.Ile40Val Uncertain significance Single submitter
-
SLC25A1 p.Leu129Val
Uncertain significance
Single submitter
Inborn genetic diseases
- SLC25A1 p.Leu184Phe Uncertain significance Single submitter
-
SLC25A1 p.Lys190Arg
Uncertain significance
Single submitter
Inborn genetic diseases
All SLC25A1 variants
Pathogenic 8
- c.821+1G>A Multiple submitters myasthenic syndrome, congenital, 23, presynaptic
- p.Ala9fs Multiple submitters
- p.Arg247Gln Multiple submitters myasthenic syndrome, congenital, 23, presynaptic
- c.302+1G>T Single submitter
- p.Arg210Ter Single submitter
- p.Cys127fs Single submitter Inborn genetic diseases
- p.Gly176_Leu177insTer Single submitter
- p.Pro4fs Single submitter
Pathogenic/Likely pathogenic 4
- p.Ala274Val Multiple submitters SLC25A1-related disorder
- p.Arg173fs Multiple submitters D,L-2-hydroxyglutaric aciduria
- p.Arg282Cys Multiple submitters D,L-2-hydroxyglutaric aciduria
- p.Glu174Ter Multiple submitters SLC25A1-related disorder
Likely pathogenic 12
- p.Ser193Leu Multiple submitters 2-hydroxyglutaric aciduria
- c.631+1G>T Single submitter
- c.748-1G>C Single submitter
- c.95-3del Single submitter myasthenic syndrome, congenital, 23, presynaptic
- p.Arg282Gly Single submitter D,L-2-hydroxyglutaric aciduria
- p.Arg282His Single submitter D,L-2-hydroxyglutaric aciduria
- p.Asn219_Ile222delinsLysThrSer Single submitter
- p.Cys41Arg Single submitter myasthenic syndrome, congenital, 23, presynaptic
- p.Gly167Arg Single submitter
- p.Leu184fs Single submitter
- p.Tyr297Cys Single submitter
- p.Ala11fs No assertion criteria SLC25A1-related disorder
Conflicting classifications of pathogenicity 7
- c.202+3G>A Single submitter
- c.526+7C>T Single submitter
- c.527-4G>A Single submitter
- c.527-5C>T Single submitter Inborn genetic diseases
- c.94+6C>T Single submitter Inborn genetic diseases
- p.Gly130Asp Single submitter D,L-2-hydroxyglutaric aciduria ⚠
- p.Gly231= Single submitter
Benign 9
- c.202+17C>A Multiple submitters
- c.441+24C>T Multiple submitters
- c.442-118T>G Multiple submitters
- c.631+64A>G Multiple submitters
- c.94+96C>T Multiple submitters
- c.95-102C>T Multiple submitters
- c.95-131C>G Multiple submitters
- c.*247_*248insCACTTGTCCATGTGCTTACTGTGAACCCTGTGCC Single submitter
- c.*65_*66insAT Single submitter
Benign/Likely benign 6
- c.822-19C>T Multiple submitters
- c.95-70G>C Multiple submitters
- p.Asp298= Multiple submitters
- p.Cys262= Multiple submitters
- p.Gly93= Multiple submitters
- p.Lys309= Multiple submitters
Likely benign 100
- c.203-13C>T Multiple submitters
- c.303-8G>T Multiple submitters
- c.527-17T>A Multiple submitters
- c.527-18G>A Multiple submitters
- c.631+18G>A Multiple submitters
- c.632-3C>T Multiple submitters
- c.748-7C>A Multiple submitters
- c.822-18G>A Multiple submitters
- c.95-52G>C Multiple submitters
- c.-16C>T Multiple submitters
- p.Arg5= Multiple submitters
- p.Asp56= Multiple submitters
- p.Ser89= Multiple submitters
- p.Thr259= Multiple submitters
- p.Val139= Multiple submitters
- c.202+15G>A Single submitter
- c.202+20G>C Single submitter
- c.202+7A>C Single submitter
- c.202+8G>C Single submitter
- c.203-13C>A Single submitter
- c.203-8dup Single submitter
- c.302+13C>G Single submitter
- c.302+14G>C Single submitter
- c.302+16T>C Single submitter
- c.302+20T>C Single submitter
- c.302+7C>A Single submitter
- c.303-16dup Single submitter
- c.303-20C>T Single submitter
- c.303-6C>T Single submitter
- c.303-7C>T Single submitter
- c.441+11T>G Single submitter
- c.441+12C>T Single submitter
- c.441+9G>A Single submitter
- c.442-17T>C Single submitter
- c.442-88C>T Single submitter
- c.526+11C>T Single submitter
- c.526+12G>C Single submitter
- c.526+20T>C Single submitter
- c.526+6C>A Single submitter
- c.526+8A>C Single submitter
- c.527-14C>G Single submitter
- c.631+20C>A Single submitter
- c.632-10C>T Single submitter
- c.632-11C>T Single submitter
- c.632-18C>T Single submitter
- c.632-20C>T Single submitter
- c.632-4C>T Single submitter
- c.747+12G>A Single submitter
- c.747+12G>C Single submitter
- c.748-4A>G Single submitter
- c.748-9C>A Single submitter
- c.821+10G>C Single submitter
- c.821+15G>A Single submitter
- c.821+20G>A Single submitter
- c.821+7G>T Single submitter
- c.822-13T>C Single submitter
- c.822-16C>T Single submitter
- c.94+15G>C Single submitter
- c.94+19C>T Single submitter
- c.95-109C>T Single submitter
- c.95-12C>T Single submitter
- c.95-131C>T Single submitter
- c.95-17G>A Single submitter
- c.-41G>A Single submitter
- c.*66_*67insTG Single submitter
- p.Ala13= Single submitter
- p.Ala134= Single submitter
- p.Ala14= Single submitter
- p.Ala230= Single submitter
- p.Ala253= Single submitter
- p.Ala98= Single submitter
- p.Arg101= Single submitter Inborn genetic diseases
- p.Arg113= Single submitter
- p.Arg58= Single submitter
- p.Arg85= Single submitter
- p.Asn219= Single submitter
- p.Asp261= Single submitter
- p.Cys287= Single submitter
- p.Cys70= Single submitter
- p.Gly183= Single submitter
- p.Gly224= Single submitter
- p.His152= Single submitter
- p.Ile29= Single submitter
- p.Leu221= Single submitter
- p.Leu267= Single submitter
- p.Leu34= Single submitter
- p.Lys178= Single submitter
- p.Lys21= Single submitter
- p.Lys27= Single submitter
- p.Phe200= Single submitter
- p.Phe226= Single submitter
- p.Pro2= Single submitter
- p.Pro25= Single submitter
- p.Thr180= Single submitter
- p.Thr310= Single submitter
- p.Thr46= Single submitter
- p.Thr74= Single submitter
- p.Tyr161= Single submitter
- c.748-11_748-10dup No assertion criteria SLC25A1-related disorder
- p.Gly237= No assertion criteria
Uncertain significance 96
- c.202+5G>A Multiple submitters myasthenic syndrome, congenital, 23, presynaptic
- p.Ala11Val Multiple submitters Inborn genetic diseases ⚠
- p.Ala12Thr Multiple submitters ⚠
- p.Ala131Val Multiple submitters 2-hydroxyglutaric aciduria ⚠
- p.Arg173Gln Multiple submitters ⚠
- p.Arg210Gln Multiple submitters Inborn genetic diseases ⚠
- p.Arg257Gln Multiple submitters ⚠
- p.Asn213Ser Multiple submitters 2-hydroxyglutaric aciduria ⚠
- p.Asp69Tyr Multiple submitters myasthenic syndrome, congenital, 23, presynaptic ⚠
- p.Gln265Leu Multiple submitters Inborn genetic diseases ⚠
- p.Gly263Ser Multiple submitters Inborn genetic diseases ⚠
- p.Lys147= Multiple submitters Inborn genetic diseases
- p.Lys255Arg Multiple submitters Inborn genetic diseases ⚠
- p.Met218Thr Multiple submitters Inborn genetic diseases
- p.Pro217Ser Multiple submitters Inborn genetic diseases ⚠
- p.Pro281Ser Multiple submitters Inborn genetic diseases ⚠
- p.Pro7Ser Multiple submitters ⚠
- p.Thr246Asn Multiple submitters ⚠
- p.Tyr297His Multiple submitters 2-hydroxyglutaric aciduria ⚠
- p.Tyr64Asp Multiple submitters ⚠
- p.Val201Ile Multiple submitters ⚠
- c.203-3C>T Single submitter
- c.303-11C>T Single submitter
- c.441+6G>C Single submitter
- c.748-31_748-14del Single submitter
- c.94+3G>C Single submitter
- c.95-3C>T Single submitter
- c.95-43_95-42del Single submitter
- p.Ala115Gly Single submitter ⚠
- p.Ala14Ser Single submitter ⚠
- p.Ala20Thr Single submitter ⚠
- p.Ala274= Single submitter
- p.Ala274Glu Single submitter Inborn genetic diseases ⚠
- p.Ala274Thr Single submitter ⚠
- p.Ala35Val Single submitter ⚠
- p.Ala6Gly Single submitter ⚠
- p.Arg113Gln Single submitter ⚠
- p.Arg162Ser Single submitter
- p.Arg247Pro Single submitter Inborn genetic diseases ⚠
- p.Arg257Leu Single submitter
- p.Arg257Trp Single submitter
- p.Arg282Pro Single submitter ⚠
- p.Arg285Trp Single submitter ⚠
- p.Arg65Gln Single submitter Inborn genetic diseases ⚠
- p.Asn238Ser Single submitter Inborn genetic diseases ⚠
- p.Asp212Asn Single submitter myasthenic syndrome, congenital, 23, presynaptic ⚠
- p.Asp311Glu Single submitter ⚠
- p.Cys262Trp Single submitter Inborn genetic diseases ⚠
- p.Glu174Gln Single submitter Inborn genetic diseases ⚠
- p.Gly211Glu Single submitter Inborn genetic diseases
- p.Gly224Ala Single submitter ⚠
- p.Gly263Arg Single submitter ⚠
- p.Gly33Asp Single submitter ⚠
- p.Gly37Ser Single submitter ⚠
- p.Gly86Cys Single submitter Inborn genetic diseases ⚠
- p.His152Pro Single submitter Inborn genetic diseases ⚠
- p.His24Tyr Single submitter
- p.His254Arg Single submitter Inborn genetic diseases ⚠
- p.His60Gln Single submitter ⚠
- p.His78Arg Single submitter ⚠
- p.Ile229Asn Single submitter ⚠
- p.Ile38Met Single submitter ⚠
- p.Ile40Val Single submitter ⚠
- p.Ile67Val Single submitter ⚠
- p.Leu108Phe Single submitter ⚠
- p.Leu119Arg Single submitter ⚠
- p.Leu125Pro Single submitter myasthenic syndrome, congenital, 23, presynaptic ⚠
- p.Leu129Val Single submitter Inborn genetic diseases ⚠
- p.Leu184Phe Single submitter ⚠
- p.Leu272Ile Single submitter Inborn genetic diseases ⚠
- p.Lys190Arg Single submitter Inborn genetic diseases ⚠
- p.Met104Ile Single submitter Inborn genetic diseases ⚠
- p.Met218Val Single submitter ⚠
- p.Phe150Ser Single submitter Inborn genetic diseases ⚠
- p.Phe199Cys Single submitter Inborn genetic diseases ⚠
- p.Phe200del Single submitter myasthenic syndrome, congenital, 23, presynaptic
- p.Phe44Leu Single submitter ⚠
- p.Pro240Ser Single submitter ⚠
- p.Ser204Phe Single submitter
- p.Ser234Arg Single submitter ⚠
- p.Thr180Met Single submitter ⚠
- p.Thr185Ile Single submitter Inborn genetic diseases ⚠
- p.Thr239Ala Single submitter Inborn genetic diseases ⚠
- p.Thr259Met Single submitter ⚠
- p.Thr279fs Single submitter
- p.Thr310Ala Single submitter 2-hydroxyglutaric aciduria ⚠
- p.Thr310Met Single submitter ⚠
- p.Trp308Ter Single submitter
- p.Val172Met Single submitter ⚠
- p.Val280Ile Single submitter ⚠
- p.Val295fs Single submitter
- c.747+21_747+31del No assertion criteria SLC25A1-related disorder
- p.Ala233Thr No assertion criteria ⚠
- p.Leu205= No assertion criteria
- p.Leu304dup No assertion criteria
- p.Pro96Ser No assertion criteria ⚠