rs4959039

A SNP on chromosome 6. Its most notable genotype is G;G: 1.6x higher risk for multiple sclerosis

Gene
None listed
Location
Chr 629,989,292 (GRCh38)
Highest magnitude
1.6Minor
Tested on
23andMe, AncestryDNA, FamilyTreeDNA
Minor allele frequency
26%

Genotypes

As shown in 23andMe and AncestryDNA files.

  1. A;ANot ratednormalTypical · 0.063% of people
  2. A;GBad1.4x higher risk for multiple sclerosisMinor · 1.432% of people
  3. G;GMost notableBad1.6x higher risk for multiple sclerosisMinor · 1.64% of people

On SNPedia: (A;A), (A;G), (G;G). Magnitude rates how notable a genotype is from 0 to 10, not how risky it is.

Frequency

Share of each genotype in 11 HapMap populations.

  • AverageA;A 63% A;G 32% G;G 4%
  • European ancestry (Utah)A;A 41% A;G 50% G;G 10%
  • Han Chinese (Beijing)A;A 50% A;G 42% G;G 8%
  • Japanese (Tokyo)A;A 58% A;G 36% G;G 6%
  • Yoruba (Nigeria)A;A 86% A;G 13% G;G 1%
  • African ancestry (Southwest US)A;A 70% A;G 30% G;G 0%
  • Chinese (Denver)A;A 45% A;G 48% G;G 7%
  • Gujarati IndianA;A 77% A;G 21% G;G 2%
  • Luhya (Kenya)A;A 69% A;G 29% G;G 2%
  • Mexican ancestry (Los Angeles)A;A 55% A;G 41% G;G 3%
  • Maasai (Kenya)A;A 85% A;G 15% G;G 0%
  • TuscanA;A 60% A;G 32% G;G 8%

Conditions, medicines and genes

Notes

From SNPedia

Notes

rs4959039 is a SNP located within the Class I HLA-G region of chromosome 6. Independently of the influence of the (nearby) HLA-DRB1*1501 allele, the rs4959039(G) was shown to be associated with increased risk for multiple sclerosis in a study of ~2,300 patients.

Source and license

Adapted from rs4959039 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 Its entries can be incomplete, out of date or wrong, and nothing here is a diagnosis or medical advice.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.