Aim: The present study was performed to understand the extent of FTO rs9939609 gene polymorphism and its association with obesity in South Indian Women of TamilNadu Methods and results : Concentration of glucose ,insulin was determined and Insulin Resistance and BMI was calculated in 24 obese and 30 normal subjects . Genotyping was done by the polymerase chain reaction–restriction fragment length polymorphism method. There were statistically significant differencs in the means of BMI , Fasting serum Insulin and HOMA–IR but not in the levels of fasting plasma glucose between both the groups. Interestingly both groups showed only wild type FTO T/T. Conclusion: The rs9939609 of FTO gene was not found to be associated with obesity. Looking into a multiple SNPs of the FTO gene could provide us with a better insight