MST1 · rs9858542
Where this position leads
Condition: Crohn's Disease
What the study found
Who was studied 1,748 European ancestry cases, 2,938 European ancestry controls; replicated in (see Parkes 2007).
The effect Each copy of the A allele carried 1.09 times the odds of Crohn's disease (95% confidence interval 0.96-1.24); p = 4 × 10−8.
How common The A allele had a frequency of about 28% in the people studied.
Where it sits Chromosome 3, band 3p21.31 — a synonymous change in BSN.
What ClinVar records
Classification
Benign for BSN-related disorder; no assertion criteria provided (0 of 4 stars, 1 submitter), last evaluated 2019-10-18.
ClinVar record 3055985 NM_003458.4(BSN):c.11736G>A (p.Thr3912=)
What this is ClinVar's aggregate record for this position (as of its 2026-10-19 release), not a result about you. A classification describes the variant against the condition named, as laboratories submitted it. Whether a person carries this variant, and what that would mean for them, is a question for a clinical test and a genetic counsellor.
rs9858542 is a single position in the genome, in or near the MST1 gene. Published research associates it with crohn's disease. 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 Crohn's Disease. 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 2007, PMID:17554300. 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.
Crohn's disease (rs9858542). MyGeneLog™. https://www.mygenelog.com/variants/rs9858542