Standard

PR interval

SCN10A · rs6599250

Where this position leads

Condition: Cardiac Conduction Intervals (PR Interval and QRS Duration)

What the study found

Who was studied 92,340 European ancestry individuals.

The effect Each copy of the T allele shifted the measure 3.8 ms higher (95% confidence interval 3.58-4.02); p = 4 × 10⁻²⁴².

How common The T allele had a frequency of about 41% in the people studied.

Where it sits Chromosome 3, band 3p22.2 — inside SCN10A.

What ClinVar records

Classification Benign for Brugada syndrome, Episodic pain syndrome, familial, 2; criteria provided, multiple submitters, no conflicts (2 of 4 stars, 10 submitters), last evaluated 2026-02-04. ClinVar record 259993 NM_006514.4(SCN10A):c.1868-9A>G

What this is ClinVar's aggregate record for this position (as of its 2026-09-24 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.

What each result means

C/C Published research associates this genotype with typical/baseline likelihood of PR interval — no copies of the reported risk allele.

C/T Published research associates this genotype (one copy of the reported risk allele) with an intermediate association with PR interval.

T/T Published research associates this genotype (two copies of the reported risk allele) with a higher likelihood of PR interval compared to the general population.

Source

PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity

van Setten J, Brody JA, Jamshidi Y, Swenson BR, Butler AM, Campbell H, Del Greco FM, Evans DS, Gibson Q, Gudbjartsson DF, Kerr KF, Krijthe BP

and 114 more — show all

Lyytikäinen LP, Müller C, Müller-Nurasyid M, Nolte IM, Padmanabhan S, Ritchie MD, Robino A, Smith AV, Steri M, Tanaka T, Teumer A, Trompet S, Ulivi S, Verweij N, Yin X, Arnar DO, Asselbergs FW, Bader JS, Barnard J, Bis J, Blankenberg S, Boerwinkle E, Bradford Y, Buckley BM, Chung MK, Crawford D, den Hoed M, Denny JC, Dominiczak AF, Ehret GB, Eijgelsheim M, Ellinor PT, Felix SB, Franco OH, Franke L, Harris TB, Holm H, Ilaria G, Iorio A, Kähönen M, Kolcic I, Kors JA, Lakatta EG, Launer LJ, Lin H, Lin HJ, Loos RJF, Lubitz SA, Macfarlane PW, Magnani JW, Leach IM, Meitinger T, Mitchell BD, Munzel T, Papanicolaou GJ, Peters A, Pfeufer A, Pramstaller PP, Raitakari OT, Rotter JI, Rudan I, Samani NJ, Schlessinger D, Silva Aldana CT, Sinner MF, Smith JD, Snieder H, Soliman EZ, Spector TD, Stott DJ, Strauch K, Tarasov KV, Thorsteinsdottir U, Uitterlinden AG, Van Wagoner DR, Völker U, Völzke H, Waldenberger M, Jan Westra H, Wild PS, Zeller T, Alonso A, Avery CL, Bandinelli S, Benjamin EJ, Cucca F, Dörr M, Ferrucci L, Gasparini P, Gudnason V, Hayward C, Heckbert SR, Hicks AA, Jukema JW, Kääb S, Lehtimäki T, Liu Y, Munroe PB, Parsa A, Polasek O, Psaty BM, Roden DM, Schnabel RB, Sinagra G, Stefansson K, Stricker BH, van der Harst P, van Duijn CM, Wilson JF, Gharib SA, de Bakker PIW, Isaacs A, Arking DE, Sotoodehnia N

Nature communications · 2018 · PMID 30046033 · open access

Questions about rs6599250

What is rs6599250?

rs6599250 is a single position in the genome, in or near the SCN10A gene. Published research associates it with pr interval. A single variant does not decide an outcome — it shifts a probability, and for most common variants the shift is small.

What conditions is rs6599250 linked to?

On MyGeneLog this position is linked to Cardiac Conduction Intervals (PR Interval and QRS Duration). The research behind each link, and its sources, are set out on that condition page.

Does having rs6599250 mean I will get this?

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.

Where does the information about rs6599250 come from?

GWAS Catalog, Nat Commun 2018, PMID:30046033. Every variant on MyGeneLog comes from public primary sources and is published with its citation and the date it was checked.

Quoting this page

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.

PR interval (rs6599250). MyGeneLog™. https://www.mygenelog.com/variants/rs6599250

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