By measuring the saturated hydraulic conductivity, mechanical composition, bulk density, non-capillary porosity, capillary porosity, total porosity, organic carbon content and other soil properties of Karst shallow fissure soil (0—10, 10—20, 20—30, 30—50, 50—70, 70—100 cm), the permeability characteristics and influencing factors of various soil layers in Karst shallow fissures were studied. The results showed that: (1) Soil properties in Karst shallow fissures showed an increase or decrease trend with the change of soil depth, in which the bulk density, clay content and capillary porosity increased with the change of soil depth, while the change trends of the saturated hydraulic conductivity, organic carbon and non-capillary porosity with the depth of the soil layer were opposite. (2) The variation coefficient of soil saturated hydraulic conductivity was higher than that in non-Karst area, and it showed an volatility growth trend with the change of soil layer. At the same time, the trend of decreasing with the depth of soil layer could be simulated by logarithmic function (R²=0.946 2). (3) Pearson correlation analysis showed that the saturated hydraulic conductivity of the soil in the fissures was significantly related to the clay content and silt content in the mechanical composition (P<0.05), but was not related to the sand content (P>0.05), and was significantly related to other soil properties (P<0.01), and the non-capillary porosity had the highest correlation (P=0.898). Non-capillary pore of shallow fissured soil was the main factor affected its permeability, and deep fissured soil had more capillary pore which was good at storing water needed by plants. Therefore, in Karst areas which is lack of land resources, it will be the research focus in the future to make full and rational use of water distribution in deep soil of fissures. The results of this study could provide scientific basis for water transport, rocky desertification control and vegetation restoration in Karst areas.