This paper conducted fluorescent spectra of starch powder by using three dimensional fluorescence spectroscopy (EEMs) combined with parallel factors analysis (PARAFAC), revealing that different fluorescence features in the different crops. We built fluorescence fingerprint of several monocots seed starch such as rice, sorghum and maize. Furthermore, we tested the correlations of fluorescence properties and rice variety. The results indicated that fluorescence components intensity were lower in indica varieties than that in japonica varieties. One-way analysis of variance test showed statistic differences between indica varieties and japonica varieties. This method can be used for different variety starch identification.