rs2303138

A SNP in the LNPEP gene on chromosome 5. Its most notable genotype is A;A: 2.25x increased risk (0.2%) for Ankylosing Spondylitis.

Gene
LNPEP
Location
Chr 597,015,006 (GRCh38)
Highest magnitude
2.0Worth knowing
Tested on
23andMe, AncestryDNA, FamilyTreeDNA
Minor allele frequency
17%

Genotypes

As shown in 23andMe and AncestryDNA files.

  1. A;AMost notableBad2.25x increased risk (0.2%) for Ankylosing Spondylitis.Worth knowing · 2.05% of people
  2. A;GBad1.5x increased risk (0.15%) for Ankylosing Spondylitis.Worth knowing · 2.024% of people
  3. G;GGoodNormal risk (0.1%) for Ankylosing Spondylitis.Minor · 1.970% 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 5% A;G 24% G;G 70%
  • European ancestry (Utah)A;A 0% A;G 15% G;G 85%
  • Han Chinese (Beijing)A;A 20% A;G 51% G;G 29%
  • Japanese (Tokyo)A;A 12% A;G 43% G;G 45%
  • Yoruba (Nigeria)A;A 0% A;G 9% G;G 91%
  • African ancestry (Southwest US)A;A 0% A;G 14% G;G 86%
  • Chinese (Denver)A;A 16% A;G 61% G;G 24%
  • Gujarati IndianA;A 4% A;G 26% G;G 70%
  • Luhya (Kenya)A;A 0% A;G 4% G;G 96%
  • Mexican ancestry (Los Angeles)A;A 9% A;G 26% G;G 66%
  • Maasai (Kenya)A;A 0% A;G 8% G;G 92%
  • TuscanA;A 0% A;G 10% G;G 90%

Conditions, medicines and genes

Notes

From SNPedia

Notes

Each A allele at rs2303138 in the LNPEP gene is associated with 1.5x higher odds of ankylosing spondylitis, according to a 2007 report.

A;A

Doubled, but still very low, risk of the rare autoimmune disease that causes inflammation of the spine and joints. Based on preliminary research.

A;G

Increased, but still very low, risk of the rare autoimmune disease that causes inflammation of the spine and joints. Based on preliminary research.

G;G

Normal, very low risk of the rare autoimmune disease that causes inflammation of the spine and joints. Based on preliminary research.

Source and license

Adapted from rs2303138 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 Its entries can be incomplete, out of date or wrong, and nothing here is a diagnosis or medical advice.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.