Background : Among all childhood seizure patients febrile seizure accounts for more than 30% of the total. A lot of confounding factors are there in the causation of febrile seizure. We designed this study to investigate the mutation in receptor neuronal nicotinic acetylcholine gene to determine whether this polymorphism could be a marker of susceptibility to febrile seizure in children. Materials and methods: 100 case and 100 age and sex matched healthy controls were selected. Fasting blood samples were collected. Data was analyzed statistically. Results: Genetic variations in nicotinic acetylcholine gene was found among the febrile seizure patients. Discussion: Any mutation in the coding region of the receptor protein might effect their production and resulted in febrile seizure. Conclussion: Treating the patient a gene analysis may give prior information and can decrease the morbidity and future complications to the patient and the related family members.