The invention discloses a method for identifying the purity of corn seeds. Compared with the prior art, by adjusting the concentrations of acrylamide and N,N-methylene bisacrylamide (MBA) in the method, for the method, the toughness and the rigidity of separation gel sheets are greatly improved; stacking gel is omitted, electrophoretic velocity is slowed down by reducing the voltage, and proteins with different molecular weights can be gathered on the same horizontal line before entering separation gel; methyl green AR-0721 is screened out in the method, and the migration rate of the methyl green AR-0721 is synchronous with the migration rate of protein molecules, thus being convenient to check whether the test procedure is finished; the sample extracting temperature and dyeing conditions are improved, the extraction and identification time is greatly shortened, the identification efficiency is improved, and the fixed procedure of the separation gel is simplified at the same time; the cleaning and storing procedures of the separation gel sheets are added, a cleaning solution and a storage solution are developed, and both the test result identification and the separation gel sheet storage are convenient.