Under the background of global warming, the farmland soil respiration has become the main way of agricultural carbon emissions. And green manure has great potential to curb greenhouse gas emissions and achieve energy conservation and emissions reduction. However, in purple soil region of Southwest, China, soil respiration under green manure remains unclear, especially in the winter and intercropping. Through the green manure (Chinese milk vetch) intercropping with rape, therefore, we compared the effects of rape rhizosphere under straw mulching. The soil organic carbon and soil respiration were examined. The results showed, compared with straw mulching, root separation was the major influencing factors of soil organic carbon on rape rhizosphere. Soil organic carbon was significantly decreased by root interaction. In addition, straw mulching promoted while green manure intercropping inhibited the soil respiration. Soil respiration presented the general characteristics of fall-rise-fall due to the strong influence of rape growth period. Therefore, it showed a cubic curve relationship with soil temperature.