Abstract：A total of 914 markers（848 SSR and 66 SFP）were used to survey the genomic polymorphism between the blast resistant rice variety Xiangzi3150 and the blast susceptible variety CO39. The results showed that expected bands were amplified from 96.39% of 880 markers (814 SSR and 66 SFP). Among them, 220 polymorphic markers were identified, which counted 24.10% of the total markers used in the survey. The polymorphism rate of the SSR marker (23.61%) was lower than that of the SFP marker (30.3%).The rate of polymorphic markers on the 12 chromosomes was different. Chromosome 10 had the highest rate (30%) and chromosome 9 had the lowest rate (14.55%). SSR markers with different repeat units also showed a significant difference in polymorphism rate. The SSR markers with tetranucleotide repeats had the highest polymorphism rate (27.96%), followed by the dinucleotide repeat, trinucleotide repeat and single-nucleotide repeat markers, respectively. The result demonstrated that Xiangzi3150 and CO39 have sufficient genomic polymorphism and can be used for constructing a mapping population for rice blast resistance genes. Key words：rice; SSR;SFP;polymorphism;rice blast resistance