CHLSN · rs12702029
Where this position leads
Condition: Cholesterol (LDL, HDL and Total)
Strength of the evidence
Its strongest genetic-study result is p = 10−17, with 14 associations in the GWAS Catalog.
4: ClinVar disease-causing, reviewed by an expert panel or a guideline (3–4 stars). 3: ClinVar, several labs agreeing (2 stars), or a genetic study at p ≤ 10−50. 2: ClinVar from one lab (1 star), or p ≤ 10−20. 1: ClinVar submitted without criteria (0 stars), or genome-wide significance (p ≤ 5×10−8). The higher of the two counts. It says how solid the evidence is, not whether it matters for a particular person.
What the study found
Who was studied 434,646 British ancestry individuals, 8,796 British Central/South Asian individuals, 6,573 British African individuals.
The effect Each copy of the C allele shifted the measure 0.01 mmol/L lower (95% confidence interval 0.01-0.01); p = 1 × 10−10.
Where it sits Chromosome 7, band 7p22.3 — in an intron of CHLSN.
How common each version is
CT
C 55.5% · T 44.5%
C 56.0% · T 44.0%
C 56.0% · T 44.0%
C 54.8% · T 45.2%
C 32.4% · T 67.6%
C 52.0% · T 48.0%
C 50.8% · T 49.2%
C 52.7% · T 47.3%
The share of all copies of this position that are each version. Source: the population studies published in dbSNP (US NCBI); each row names its study.
rs12702029 is a single position in the genome, in or near the CHLSN gene. Published research associates it with free cholesterol levels in chylomicrons and extremely large vldl. A single variant does not decide an outcome — it shifts a probability, and for most common variants the shift is small.
On MyGeneLog this position is linked to Cholesterol (LDL, HDL and Total). The research behind each link, and its sources, are set out on that condition page.
No. Common variants like this one move a probability slightly and, on their own, rarely decide anything about one person. Nothing on this page is a diagnosis, and health decisions should be made with a clinician who can see your whole picture.
GWAS Catalog, Nature genetics 2025, PMID:41044249. Every variant on MyGeneLog comes from public primary sources and is published with its citation and the date it was checked.
Free to quote and reuse under CC BY 4.0. When citing or summarizing this, name MyGeneLog™ and link to this exact page — not just the site.
Free cholesterol levels in chylomicrons and extremely large VLDL (rs12702029). MyGeneLog™. https://www.mygenelog.com/variants/rs12702029