The planting area and varieties of rapeseeds were studied based on Fourier transform infrared spectroscopy (FTIR) combining with stepwise discriminatory analysis. The FTIR of 188 rapeseed skin samples of 17 varieties from 5 planting areas was obtained and processed by OMINC 8.0 software. In order to distinguish their planting area and variety, 5 spectra in the range of 1 800～950 cm-1 for each variety from each producing area were selected as training samples arbitrarily with Fisher linear discriminatory criterion which was used to build model by means of stepwise discriminatory analysis by SPSS20.0 software. All the five discriminatory models based on Wilks’Lambda, Unexplained variance, Mahalanobis distance, Smallest F value and Rao’s v can distinguish variety and planting area well, and the best one for identifying variety was on the base of Wilks’Lambda, which yielded correct rate of 97.9%, and the best one for distinguishing planting area was on the base of Unexplained variance with a correct rate of 98.4%. The results showed that discriminatory analysis based on the infrared spectrum of rapeseed skin is an efficient method for identification of rapeseed variety and planting area.