Exposure of pollutants, plant protection products with plants through all compartments of the environment result in food contamination and toxicity. With the aim of identification of toxic nature of the diverse pesticides on Allium Cepa, experimental data (EC25 and NOEL) were collected from the OPP database and was subjected to QSTR analysis. All the developed MLR models were found to be robust (Q2LOO = 0.619 - 0.748) and predictive enough (Q2Fn = 0.662 - 0.845, CCC = 0.844 - 0.867). The prediction reliability was assured by the application of the leverage approach of Applicability Domain (AD). Finally, prediction and prioritization of the pesticides with no experimental data for two endpoints (EC25 and NOEL) were done by the first theoretical phytotoxicity model of onion. The occurrence of similar prioritized pesticides for both endpoints indicated that either of the endpoints can be used for the ecotoxicological study of the pesticides.