rs1569686

This is a intron variant variant in the DNMT3B gene.

GWAS Catalog Trait Associations (1)

Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.

smoking initiation

Saunders GRB et al. Genetic diversity fuels gene discovery for tobacco and alcohol use. Nature 612(7941):720-724 (2022)
Allele T
OR 0.01
p 2.0e-24
N 2,669,029
Large GWAS
European

Research that mentions this SNP (3)

Genetic sequence variants and the development of secondary primary cancers in patients with head and neck cancers
AssociationN=531Abul Kalam Azad et al.(2012)· Cancer

This case-control association study evaluated 23 genetic sequence variants in 17 genes across DNA repair, cell cycle, and other pathways in 531 stage I-II radiation-treated head and neck cancer (HNC) patients to identify associations with secondary primary cancers (SPCs). Among the variants tested, the DNMT3B C149T variant (rs2424913) showed a strong significant association with SPC development, with adjusted hazard ratios of 2.23 (95% CI, 1.32-3.78; P = .003) for TT versus CC genotype and 1.49 (95% CI, 1.15-1.95; P = .003) per T allele. A haplotype cluster of 5 DNMT3B variants in strong linkage disequilibrium also showed significant associations (P < .003), suggesting aberrant DNA methylation is an important modulator of field cancerization in HNC.

Traits studied:Head and neck cancerSecondary primary cancer (SPC)
Vascular endothelial growth factor (VEGF) gene polymorphisms may influence the efficacy of thalidomide in multiple myeloma
AssociationN=237Niels F. Andersen et al.(2012)· International Journal of Cancer

This case-control association study examined genetic polymorphisms in 237 Russian women to identify variants associated with early reproductive loss and recurrent miscarriage. The study found that DNMT3B rs2424913 (OR=4.44-4.78), DNMT1 rs2228611 (OR=3.0-3.94), and DNMT1 rs8101626 (OR=2.5-3.1) were significantly associated with increased risk of sporadic and recurrent early pregnancy loss, while SYCP3 rs769825641 heterozygotes showed elevated risk of sporadic miscarriage.

Traits studied:Early pregnancy lossHabitual miscarriageRecurrent pregnancy lossSporadic miscarriage
Genetic variation in the promoter of DNMT3B is associated with the risk of colorectal cancer
AssociationN=1,077Qian Bao et al.(2011)· International Journal of Colorectal Disease

This case-control study of 544 colorectal cancer patients and 533 controls found that the DNMT3B -579G allele (rs1569686) was significantly associated with decreased risk of colorectal cancer (adjusted OR 0.50, 95% CI 0.35-0.72, P=0.0002), while the -149C>T polymorphism (rs2424913) showed no significant association with CRC risk.

Traits studied:Colon cancerColorectal cancerRectal cancer

About DNMT3B

CpG methylation is an epigenetic modification that is important for embryonic development, imprinting, and X-chromosome inactivation. Studies in mice have demonstrated that DNA methylation is required for mammalian development. This gene encodes a DNA methyltransferase which is thought to function in de novo methylation, rather than maintenance methylation. The protein localizes primarily to the nucleus and its expression is developmentally regulated. Mutations in this gene cause the immunodeficiency-centromeric instability-facial anomalies (ICF) syndrome. Eight alternatively spliced transcript variants have been described. The full length sequences of variants 4 and 5 have not been determined. [provided by RefSeq, May 2011]

View all DNMT3B variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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