We present results from a 484 km wide-angle seismic profile acquired in the northwest part of the South China Sea (SCS) during OBS2006 cruise. The line that runs along a previously acquired multi-channel seismic line (SO49-18) crosses the continental slope of the northern margin, the Northwest Subbasin (NWSB) of the South China Sea, the Zhongsha Massif and partly the oceanic basin of the South China Sea. Seismic sections recorded on 13 ocean-bottom seismometers were used to identify refracted phases from the crustal layer and also reflected phases from the crust-mantle boundary (Moho). Inversion of the traveltimes using a simple start model reveals crustal images in the study area. The velocity model shows that crustal thickness below the continental slope is between 14 and 23 km. The continental part of the line is characterized by gentle landward mantle uplift and an abrupt oceanward one. The velocities in the lower crust do not exceed 6.9 km/s. With the new data we can exclude a high-velocity lower crustal body (velocities above 7.0 km/s) at the location of the line. We conclude that this part of the South China Sea margin developed by a magma-poor rifting. Both, the NWSB and the Southwest Sub-basin (SWSB) reveal velocities typical for oceanic crust with crustal thickness between 5 and 7 km. The Zhongsha Massif in between is extremely stretched with only 6–10 km continental crust left. Crustal velocity is below 6.5 km/s; possibly indicating the absence of the lower crust. Multi-channel seismic profile shows that the Yitongansha Uplift in the slope area and the Zhongsha Massif are only mildly deformed. We considered them as rigid continent blocks which acted as rift shoulders of the main rift subsequently resulting in the formation of the Northwest Sub-basin. The extension was mainly accommodated by a ductile lower crustal flows, which might have been extremely attenuated and flow into the oceanic basin during the spreading stage. We compared the crustal structures along the northern margin and found an east-west thicken trend of the crust below the continent slope. This might be contributed by the east-west sea-floor spreading along the continental margin.