Miniature inverted repeat transposable elements (MITEs) are prevalent in eukaryotic genomes. Activities of MITEs induce abundant polymorphisms in species. They are known to critically influence genome evolution and gene regulation . In this research, 286 MITE family specific primers were developed for polymorphisms screening among 157 B. napus genotypes including natural varieties collected from China and Canada and synthesized lines. Results demonstrated that (i) Sixty pairs of primers displayed clear and repeatable polymorphisms bands among genotypes, which occupied 21.0% of all developed primers；Polymorphic rate of primers developed from Stowaway-like and Tourist-like families are 24.6% and 20.0%, respectively. (ii) These 60 polymorphic primers were selected to screen MITE induced polymorphisms among 101 Chinese semi-winter, 27 Canadian spring B. napus genotypes and 29 synthesized B. napus lines. 4029, 1044 and 1087 distinguishable bands are amplified respectively.（iii）UPGMA analysis showed that, the genetic similarities are 0.59~0.95, 0.73~0.95 and 0.64~0.93 in the populations of Chinese semi-winter, Canadian spring B. napus genotypes and synthesized B. napus lines, respectively. Our results indicate abundant inter-species polymorphisms are created by thousands of MITEs copies randomly insertion in genome. By using MITE family primers to detect the polymorphism of B. napus germplasm resources in different regions, we can find those polymorphisms provide resource for molecular marker assisted breeding of B. napus.