A process for the production of isoflavone enriched fraction from soy is developed to have pure hypocotyledons having 95-96% purity with an yield of 95-100% from the starting material. The process includes dehulling of beans with 8-10% moisture followed by size separation and shearing of the mixture of components of dehulled material for better recovery of hypocotyledons. The various fractions are finally air classified to get pure germs free from cotyledons and hulls. .