Soil permeability plays a key role in the study of earth sciences for agriculture and forestry. Because the traditional laboratory measurement is time-consuming and laborious, and only discrete profile data can be obtained. In this paper, a simple and efficient method using soil transfer function (PTFs), is proposed to estimate permeability and other parameters indirectly by seismic wave observation. Based on Biot’s theory establishing the relationship between shear-wave velocity and permeability, and the basic soil information in the study area, including land survey, logging and drilling data, using the PTFs constraint to estimate saturated hydraulic conductivity, soil components, saturated water content and residual water content may favor the physical corrections of the PTFs. The results show that there are three distinct layers of permeability in the study area, consistent with the velocity structure. The measured basic information further verifies the accuracy of the saturated permeability coefficient estimation, which shows the reliability of the improved PTFs. The established near surface permeability estimation method by integrating seismic wave observation and soil basic information may provide further assimilation for parameter estimation combining geophysical observation and hydrogeographic statistics.