The objective of this study is to analyze the genetic diversity of 58 varieties of rice restorer lines based on yield loci related markers. 47 yield loci related markers were used to scan 58 varieties from China and south and Asia southeast Asia.(China: 14, India: 18, Philippines: 3, Vietnam: 12, Bangladesh: 8, Thailand: 2). The result showed:（1）In restorer lines from China ,36 yield loci related markers showed polymorphism, and 90 alleles were detected with an average of 2.500 alleles per marker(64.905 effective alleles with an average of 1.747 alleles per marker) ,and the average of Shannon information index was 0.632 , ranged from 0.271-1.266. (2) In restorer lines from another countries, all of the 47 yield loci related markers showed polymorphism, and totally 131 alleles were detected with an average of 2.787 alleles per marker(82.686 effective alleles with an average of 1.759 alleles per marker), and the average of Shannon information index was 0.649 , ranged from 0.109-1.110. (3) Cluster analysis showed the 58 varieties could be clustered into three categories on the level of 0.73 genetic similarity coefficient. The varieties from China were mainly clustered in 1,2,3 subsets of groupⅠ. Vietnamese varieties were mainly clustered in 4 subsets of groupⅠ, Bangladesh varieties were mainly clustered in 4 subsets of groupⅢ. All of above results showed a narrow genetic base in the tested Chinese varieties and Chinese varieties had a distant genetic relationship to other countries varieties.