In order to understand biogeochemical cycles of organic carbon in the permeable intertidal sandy sediments of the Nakdong estuary, we estimated the organic carbon production and consumption rates both in situ and in the laboratory. The Chl-a content of the sediment and the nutrient concentrations in below surface pore water in the sandy sediment were lower than in the muddy sediment. The sediment oxygen consumption rates were relatively high, especially when compared with rates reported from other coastal muddy sediments with higher organic carbon contents. This implied that both the organic carbon degradation and material transport in the sandy sediment were enhanced by advection-related process. The simple mass balance estimation of organic carbon fluxes showed that the major sources of carbon in the sediment would originate from benthic microalgae and detrital organic carbon derived from salt marsh. The daily natural biocatalzed filtration, extrapolated from filtration rates and the total area of the Nakdong estuary, was one order higher than the maximum capability of sewage plants in Busan metropolitan city. This implies that the sandy sediment contributes greatly to biogeochemical purification in the area, and is important for the re-distribution of materials in the coastal environment.