The Hongshishan ophiolitic migmatitic complex outcropped along the Hongshishan deep fracture, which was the northern marginal fault of the Tarim plate. The ophiolite was mainly composed of metamorphic peridotite, gabbro (including the cumulated gabbro) and basalts. The discriminative diagrams indicated that the geochemical characteristics of the basalts were similar to the MORB. The REE patterns and spidergrams of trace elements showed that the meta-peridotite, gabbro and basalts had a genetic relation, and could be relevant to N-MORB. To synthesize the regional geology, the paper suggested that the Hongshishan ophiolite might record an initial oceanic basin in its early stage which resulted from an intracontinental rift between the Tarim and the Junggar (including the Turpan-Harmi area) plates, and in later stage (Early Carboniferous) a wide ocean with spreading ridge created. The isotopic datings of volcanic arc and calc-alkaline granitoids demonstrated that the oceanic crust subducted in late Early Carboniferous. The Tarim plate collided the Junggar plate in Middle Permian and the ophiolite emplaced in Late Permian, accompanied with a metamorphism of green schist facies.