Based on the analysis of influence factors of distribution of benefits in the collaborative innovation of enterprises, colleges and institutes, improved Shapley value is proposed based on the revised intervals, the research collaborative innovation research interests allocation problem ,and the distribution of benefits were studied by using Shapley value model. Firstly, Shapley value model was described and analyzed in this paper. Then according to the characteristics of collaborative innovation of enterprises, colleges and institutes, and union bargaining power,project risk factors, project completion, etc. were evaluated by introducing intervals, and penalty function and excitation function were established to correct the Shapley value model .Ultimately through a case study, it can confirm that the Shapley value model based on the revised intervals established in this paper is effective and fair.