Abstract The effects of DNA concentrations(0.2~16 ng/μL), transgene contents (50.0%~0.05%,W/W), storage temperatures(22℃,4℃,-20℃) and storage periods (1,2,3 weeks and 1, 3 months) on qualitative PCR detection of transgene from transgenic rice(Oryza sativa ssp.indica) were evaluated. The result showed that all the primers can amplified targeted fragment when DNA concentration was higher than 0.4 ng/μL. For mixed samples with 1.0% and 0.1% transgene, the lowest DNA concentration which was still detectable was 1 ng/μL and 2~4 ng/μL, respectively. Sample storage at the three tested different temperatures did not affect subsequent PCR detection. And the brightness of electrophoresis strips of PCR products were gradually weakened after 3 months storage of DNA sample.