Abstract: Sericulture production is used to the first filial generation. The rule method to identify silkworm variety and purity with morphological characters of larval pattern or cocoon shape is easily affected by environment. Thus，the prescription and accuracy is low. The genome DNA of silkworm was extracted from single blue-stage-egg of mainly silkworm varieties in JiangSu province of SU5, SU6 and their F1with rapid method. The specific bands R5 and R6 of RAPD were amplify traced each from of SU5 and SU6 variety, with selected random primer of S42. The sequences were 255bp and 343bp respectively after cloned and sequenced. Then analyze the sequences by courtesy of database on-line. The results showed the nt7-192 of R5 and the nt183-368 of the non-LTR retrotransposon of silkworm has 91% consistency. Accordingly, 91% of nt675-337 of one of whole genome shotgun sequence（WGS）of silkworm shows the same sequence as the nt5-340 of R5, which include 13 gaps. Further, transform the RAPD mark of two parental varieties to SCAR mark. Thus, SU5, SU6 and their F1 were identified accurately and fast, with the synthetic specific primers of S42-255-2（P5-2）and S42-343-2（P6-2）.

Key words: Silkworm (Bombyx mori L.), Molecular mark, SCAR (sequence characterized amplified regions), Variety, Purity