Maintenance of genetic uniformity of lines and hybrids is a prerequisite for successful production and placement of commercial hybrid seed on the market. Genetic purity of seed as specific seed trait is of great significance for seed science. Protein markers, seed storage proteins and isozymes, which are commonly used for the estimation of genetic purity, were used in this work to estimate genetic purity in sunflower hybrids. Analysis of helianthinin revealed tree zymogram patterns within and between sixteen sunflower hybrids. All of the 6 enzymatic systems analyzed, MDH, PGM, PHI, PGD, IDH and ACP, were polymorphic. A comparative analysis of genetic purity level of the sunflower hybrids was performed using electrophoretic methods. The methods of electro phoretic separation of isozymes and seed storage proteins were in agreement, with differences ranging from 1% to 5% in 81% of the samples. The level of pol ymorphism obtained by both methods was not distinct enough to be used in genotype identification.