Offspring D9 from indica rice imported bitter melon DNA by pollen tube channel method and the receptor(RT), and the whole genome was sequenced by Illumina HiSeqTM. Meanwhile, the nutritional composition contents and total saponin content in milled rice, and the swelling power and the edible quality of milled rice were analyzed. The results indicated that parts of the melon's DNA fragment were integrated into the rice’s DNA and the total saponin content of physiological active ingredient was significantly increased. The bitter melon gene caused the improvement on the nutrients and make the fat content increase, dietary fiber and ash content to reduce.