Composition of isoflavone in cotyledon and hypocotyl of soybean were detected using HPLC. Optimum conditions for extracting isoflavone from hypocotyl were studied as well. Contents of isoflavone in soybean cotyledon and hypocotyl were 482.5 mg 100 $g^{-1}$ and 3453.3 mg 100 100 $g^{-1}$, respectively. Hypocotyl contained 7~8 times move isoflavone than corresponding cotyledon of the soybean. Malonyl glycoside accounted for move than 70% of the total isoflavone, followed by glycoside, acetyl glycoside, and aglycone. Aqueous ethanol of 60~80% was the most suitable solvent for extracting isoflavone from the hypocotyl. Optimum temperature and time was $90^{circ}C$, 1hr. Acetic acid, NaCl, and NaOH added to 80% ethanol suppressed extraction yield of the phytochemieal.