rs689466

A SNP in the PTGS2 gene on chromosome 1. Its most notable genotype is C;C: 1.4x higher risk for inflammatory bowel diseases

Gene: PTGS2
Location: Chr 1186,681,619 (GRCh38)
Highest magnitude: 1.4Minor
Tested on: 23andMe, AncestryDNA
Minor allele frequency: 25%

Genotypes

Plus strand, as in 23andMe and AncestryDNA files.

SNPedia records rs689466 on the minus strand: (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.

AverageT;T 65% C;T 27% C;C 8%
European ancestry (Utah)T;T 72% C;T 23% C;C 5%
Han Chinese (Beijing)T;T 29% C;T 50% C;C 22%
Japanese (Tokyo)T;T 35% C;T 42% C;C 24%
Yoruba (Nigeria)T;T 84% C;T 16% C;C 0%
African ancestry (Southwest US)T;T 81% C;T 19% C;C 0%
Chinese (Denver)T;T 31% C;T 42% C;C 27%
Gujarati IndianT;T 75% C;T 23% C;C 2%
Luhya (Kenya)T;T 93% C;T 6% C;C <1%
Mexican ancestry (Los Angeles)T;T 59% C;T 38% C;C 3%
Maasai (Kenya)T;T 94% C;T 6% C;C 0%
TuscanT;T 67% C;T 31% C;C 2%

Conditions, medicines and genes

Other PTGS2 SNPs

All PTGS2 SNPs

Notes

From SNPedia

Show notes, about 380 words

rs689466 is a SNP in the COX-2 gene, also known as the prostaglandin-endoperoxide synthase 2 PTGS2 gene. A Scottish and Danish case-control study including 732 Crohn's disease (CD) cases, 973 ulcerative colitis (UC) cases, and 1157 healthy controls found that the rs689466(G) allele was associated with higher risk for ulcerative colitis and inflammatory bowel disease, especially among those who never smoked. The reported odds ratios were 1.25 and 1.47, rspectively. This allele was also associated with younger age at diagnosis and with extensive ulcerative colitis. Cyclooxygenase-2 polymorphisms in Parkinson's disease. Pyrosequencing of polymorphisms in the COX-2 gene (PTGS2) with reported clinical relevance. Association of polymorphisms in cyclooxygenase (COX)-2 with coronary and carotid calcium in the Diabetes Heart Study. Polymorphic variation in NFKB1 and other aspirin-related genes and risk of Hodgkin lymphoma. Dietary omega-3 fatty acids, cyclooxygenase-2 genetic variation, and aggressive prostate cancer risk. No association between cyclooxygenase-2 and uridine diphosphate glucuronosyltransferase 1A6 genetic polymorphisms and colon cancer risk. Polymorphisms in the xenobiotic transporter Multidrug Resistance 1 (MDR1) and interaction with meat intake in relation to risk of colorectal cancer in a Danish prospective case-cohort study. Functional polymorphisms of cyclooxygenase-2 gene and risk for hepatocellular carcinoma. No influence of PTGS2 polymorphisms on response and remission to antidepressants in major depression. Cyclooxygenase-2 polymorphisms and susceptibility to esophageal cancer: a meta-analysis. Interaction of cyclooxygenase-2 promoter polymorphisms with Helicobacter pylori infection and risk of gastric cancer. Variation in human genetic polymorphisms, their association with Helicobacter pylori acquisition and gastric cancer in a multi-ethnic country. Functional genetic variations of cyclooxygenase-2 and susceptibility to acute myeloid leukemia in a Chinese population. Population-specific genetic associations with oesophageal squamous cell carcinoma in South Africa. Polymorphisms in cycloxygenase-2 gene and breast cancer prognosis: association between PTGS2 haplotypes and histopathological features.

Source and license

Adapted from rs689466 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.