The spatial and temporal distribution of phenanthrene were examined with indoor simulation experiments to study the transportation and transformation of phenathrene in the groundwater aquifer. The result showed that non-point pollution of PAHs is easily formed because of the effects of PAHs pollution’s convection and dispersion along with groundwater. The experiment about relationship between pH, Eh, conductivity and pollution plume of phenathrene revealed that variation trend of pH and conductivity are the same. Yet Eh variation is just contrary as the average rising ratios were 0.194 mv/d and 0.163 mv/d, respectively. The natural attenuation of phenanthrene pollutants in aquifer is obvious for the initial 80 days. The three stages about variation of phenanthrene in groundwater aquifer were slow decline stage (stage I), rapid decline stage (stage II) and stationary stage (III stage). The removal rate of phenanthrene by aquifer is 37.2 %, which adapts to stage II concerning groundwater remediation.