Multiple sclerosis

82 SNPs linked to Multiple sclerosis across 35 genes, 14 with a genotype of magnitude 2 or higher.

Type: Condition
SNPs: 82
Notable: 14Magnitude 2 or higher
Well documented: 47
Genes: 35

Linked SNPs

Every genotype, as shown in 23andMe and AncestryDNA files.

rs115799546NLRP1Very important
- C;Ccommon/normalGood
- C;TCarrier of a possible mutation causing multiple sclerosis and malignant melanomaBad
- T;TMultiple sclerosis/malignant melanoma mutation genotypeBad
rs7574865STAT4Important
- G;Gnormal risk of rheumatoid arthritis, SLE, Sjögren's syndrome, type-1 diabetes, and primary biliary cirrhosis.Good
- G;T1.3x risk of rheumatoid arthritis; 1.55x risk of SLE; 1.42x risk of Sjögren's syndrome; increased risk of type-1 diabetes; and increased risk of primary biliary cirrhosis.Bad
- T;T1.69x risk of rheumatoid arthritis; 2.4x risk of SLE; 2.28x risk of Sjögren's syndrome; increased risk of type-1 diabetes; and increased risk of primary biliary cirrhosis.Bad
rs3135391HLA-DRAImportant
- G;GnormalGood
- A;GHLA-DRB1*1501 carrier; higher multiple sclerosis riskBad
- A;A3 to 6 fold higher risk for multiple sclerosisBad
rs117913124CYP2R1Important
- A;AAt least 2x higher risk for vitamin D insufficiency; also somewhat higher risk for MSBad
- A;G~2x higher risk for vitamin D insufficiency; also 1.4x higher risk for MSBad
- G;Gcommon/normalGood
rs1800629TNFWorth knowing
- A;Acomplex; generally higher risk for certain diseasesBad
- A;Gcomplex; generally higher risk for certain diseasesBad
- G;Gcomplex; generally normal riskGood
rs3129934LOC101929163Worth knowing
- C;CNormal lower risk of Multiple Sclerosis.Good
- C;TIncreased risk of Multiple Sclerosis.Bad
- T;T3.3x increased risk for multiple sclerosisBad
rs6897932IL7RWorth knowing
- C;C1.08x increased risk for multiple sclerosisBad
- C;T0.91x decreased risk for multiple sclerosisGood
- T;T0.70x decreased risk for multiple sclerosisGood
rs763361CD226Worth knowing
- C;CNormal risk for multiple autoimmune diseasesGood
- C;TSlightly increased risk for multiple autoimmune diseases, such as type-1 diabetesBad
- T;TIncreased risk for multiple autoimmune diseasesBad
rs3135388HLA-DRAWorth knowing
- G;GnormalGood
- A;G3x higher risk of multiple sclerosisBad
- A;A3-6x higher risk of multiple sclerosisBad
rs6498169CLEC16AWorth knowing
- A;A>1.14x risk of multiple sclerosisBad
- A;G1.14x risk of multiple sclerosisBad
- G;GcommonNot rated
rs6604026RPL5Worth knowing
- C;C>1.15x risk of multiple sclerosisBad
- C;T1.15x risk of multiple sclerosisBad
- T;TcommonGood
rs7536563FAM69AWorth knowing
- A;A>1.12x risk of multiple sclerosisBad
- A;G1.12x risk of multiple sclerosisBad
- G;GcommonGood
rs9282860STK11Worth knowing
- C;Ccommon/normalGood
- C;Tslightly increased risk for multiple sclerosis in femalesBad
- T;Tslightly increased risk for multiple sclerosis in femalesBad
rs10984447DBC1Worth knowing
- A;A>1.17x increased risk for multiple sclerosisBad
- A;G1.17x increased risk for multiple sclerosisBad
- G;GNormal risk for multiple sclerosisGood
rs2488457PTPN22Minor
- G;Gcommon/normalGood
- C;GSlightly increased (~1.5x) risk for certain autoimmune diseases in some populationsBad
- C;CSlightly increased (~1.7x) risk for certain autoimmune diseases in some populationsBad
rs4959039Minor
- A;AnormalNot rated
- A;G1.4x higher risk for multiple sclerosisBad
- G;G1.6x higher risk for multiple sclerosisBad
rs1800693TNFRSF1AMinor
- T;Tcommon/normalGood
- C;Tslight (1.2x) increase in risk for multiple sclerosisBad
- C;Cslight (1.4x) increase in risk for multiple sclerosisBad
rs2104286IL2RAMinor
- T;T1.7x risk for RA; 1.6X for T1D; also MS?Bad
- C;T1.4x risk for RA; 1.3x for T1D; also MS?Bad
- C;Cprotective minor allele, slightly reducing risk for MS & RAGood
rs7528684FCRL3Minor
- A;A0.73x reduced risk of Graves' diseaseGood
- A;GnormalNot rated
- G;G1.2x risk of Rheumatoid Arthritis; various risks of autoimmune diseasesBad
rs926103SH2D2AMinor
- T;TPossible increased risk of multiple sclerosis if SH2D2A promoter GA repeat=16Bad
- C;TNo increased risk.Good
- C;CNo increased risk.Good
rs2546890LOC285626Minor
- A;AHigher risk of multiple sclerosisBad
- A;GHigher risk of multiple sclerosisBad
- G;GLower risk of multiple sclerosisGood
rs61731956NR1H3Minor
- A;ANo summary available.Not rated
- A;GNo summary available.Not rated
- G;Gcommon/normalGood
rs8702KLC1Typical
- G;GaverageNot rated
- C;G?Not rated
- C;C0.2x risk for MSGood
rs632407Typical
- C;Ccommon in complete genomicsGood
rs669607LOC107986041Typical
- A;Ccommon in complete genomicsGood
rs725613CLEC16ATypical
- T;T1.2x increased type-1 diabetes risk; 1.2x increased multiple sclerosis riskBad
- G;T1.2x increased type-1 diabetes risk; 1.2x increased multiple sclerosis riskBad
- G;GnormalNot rated
rs1321172PDE4BTypical
- G;GcommonNot rated
- C;G1.08x riskNot rated
- C;C>1.08x riskBad
rs1327328Typical
- G;GnormalNot rated
- A;GnormalNot rated
- A;A1.7x increased risk for multiple sclerosisBad
rs1801406BRCA2Typical
- A;Acommon in clinvarGood
- A;Gbenign variantGood
- G;Gbenign variantGood
rs2050656RYR2Typical
- C;Ccommon in complete genomicsGood
rs2076530LOC101929163Typical
- T;T2x risk for sarcoidosisBad
- C;Tincreased risk for sarcoidosisBad
- C;CnormalNot rated
rs3741981OAS1Typical
- A;GNo summary available.Not rated
rs4149584TNFRSF1ATypical
- C;Ccommon in clinvarGood
rs4763655KLRB1Typical
- A;A>1.10x riskNot rated
- A;G1.10x riskNot rated
- G;GcommonNot rated
rs6680578EVI5Typical
- A;A>1.11x riskNot rated
- A;T1.11x riskNot rated
- T;TcommonNot rated
rs7326018Typical
- A;AnormalNot rated
- A;TnormalNot rated
- T;T1.8x increased risk for multiple sclerosisNot rated
rs7577363ALKTypical
- A;A>1.37x riskNot rated
- A;G1.37x riskNot rated
- C;CNo summary available.Not rated
- G;GcommonGood
rs9282641CD86Typical
- G;Gcommon in complete genomicsGood
rs10492972KIF1BTypical
- C;Cconflicting reports; possible slight increased risk for multiple sclerosisNot rated
- C;Tconflicting reports; possible slight increased risk for multiple sclerosisNot rated
- T;TnormalNot rated
rs10735781EVI5Typical
- C;C>1.11x riskNot rated
- C;G1.11x riskNot rated
- G;GcommonNot rated
rs10975200KANK1Typical
- A;ANo summary available.Not rated
- C;C>1.14x riskNot rated
- C;T1.14x riskNot rated
rs11164838FAM69ATypical
- C;C>1.11x riskBad
- C;T1.11x riskBad
- T;TcommonNot rated
rs12044852CD58Typical
- A;AcommonGood
- A;C1.24x riskBad
- C;C>1.24x riskBad
rs12487066LOC105374027Typical
- C;C>1.09x increased risk for multiple sclerosisNot rated
- C;T1.09x increased risk for multiple sclerosisNot rated
- T;TcommonNot rated
rs12708716CLEC16ATypical
- A;A1.6x risk of type-1 diabetesBad
- A;G1.2x risk of type-1 diabetesBad
- G;GnormalNot rated
rs12722489IL2RATypical
- C;Ta slight increase in risk of developing multiple sclerosisBad
- C;Ca slight increase in risk of developing multiple sclerosisBad
rs17824933CD6Typical
- C;Ccommon on affy axiom dataGood

Other SNPs

No notable genotype or detailed notes

Show 35 SNPs

Source and license

Adapted from Multiple sclerosis on SNPedia, using a snapshot taken October 16, 2026. SNPedia content is shared under CC BY-NC-SA 3.0 US, and this page is shared under the same license.

SNPedia is a community-edited wiki. Its entries can be incomplete, out of date or wrong, and nothing here is a diagnosis or medical advice. Magnitude is a community rating of how interesting a genotype is, not a risk score.

Linked SNPs

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Genes

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Source and license