This test focuses on the genetic diversity of 60 Japonica rice Germplasms in Ningxia Province. These Japonica rice germplasms were analyzed by using SSR molecular markers. The results indicated that 58 of 103 pairs SSR primers performed polymorphisms, and 212 alleles were detected. Each pair of primer ranged from 2 to 9 alleles, and the average value was 3.7 alleles. Polymorphic information content (PIC) ranged from 0.032 to 0.788, and the average value was 0.403. High-polymorphic loci emerged mainly at chromosome 3, chromosome 6 and chromosome 11, while non-polymorphic loci and low-polymorphic loci emerged at chromosome 1 and chromosome 10. Genetic similarity of paired varieties ranged from 0.642 to 0.958 and mean was 0.790, while that of single varieties ranged from 0.710 to 0.816 and mean was 0.781. Genetic basis was similar and close genetic relationship. UPGMA cluster analysis showed that 60 rice varieties could be clustered into 11 groups and the overwhelming varieties were clustered into the same group.