Aim: In this study we have investigated the association of FTO gene variants rs9940128 (intron 1), in type 2 diabetes milletus patients and controls of Kanpur population across regulatory region of the fat mass and obesity associated (FTO) gene with obesity. Methods: This study related to with subjects (n= 150) and control (n=150) normal glucose-tolerant were controls and 150 cases (T2DM with obesity were randomly chosen from the Kanpur urban rural areas. The genomic DNA was isolated with Qaigen kit method. Genotyping was completed by the polymerase chain reaction polymorphism method, and 25% of samples were sequenced to authenticate the genotypes found. Results: The polymorphisms rs9940128 A/G of the FTO gene was associated with T2DM in our study population. The rs9940128 C/A variant was associated with obesity, and its association with T2DM was also mediated through obesity. The rs9940128 C/T variant showed an association with obesity in the total study subjects, but when the NGT subjects alone were analyzed, the association with obesity was lost. The haplotype ACCTCT confers a lower risk of T2DM in this Kanpur population. Conclusions: The Kanpur population, the rs9940128 A/G, variants of the FTO gene were associated with T2DM, and similarly the rs9940128 C/A variant are also connected with obesity
