The fumigant 1,3-dichloropropene (1,3-D) was recently proposed as a direct replacement for methyl bromide (CH3Br) in soil fumigation. This study was conducted to better understand behavior phase partitioning, diffusion and volatilization of 1,3-D as affected by isomer. The Henry's law constant(KH) of cis-1,3-D and trans-1,3-D was 0.058 and 0.037 at 20℃, respectively. KH of cis form of 1,3-D was higher than that of trans form of 1,3-D. To compare with volatilization of 1,3-D isomer, soil column [70 cm (length)×12 cm (i.d.)] included a shank injection at 30 cm with 300 kg ha-1. Maximum cis-1,3-D and trans-1,3-D concentration reached 57 mg L-1 and 39 mg L-1 at 30 cm depth at 1h after application. Cumulatively, after 10 days, 51.8% and 43.57% of applied cis-1,3-D and trans-1,3-D was emitted via volatilization, respectively. The total losses of cis-1,3-D were significantly greater than that of trans-1,3-D. Finally, cis-1,3-D and trans-1,3-D, such as isomer are dominant of 1,3-D fates in soil.