Organotin compounds (OTs), namely butyltins compounds (BTs) and phenyltin compounds (PhTs), were measured in surface and core sediments collected in Jeju harbor. The horizontal and vertical distribution was examined and the relationship between the concentration of OTs and organic matter content and particle size distribution was also studied. BTs were detected in significant concentrations in sediments inside Jeju harbor. PhTs were detected in very low concentrations, compared to BTs. The main species in BTs and PhTs were dibutyltin (DBT) and monobutyltin (MBT), monophenyltin (MPhT), respectively. In the relationships between the concentrations of total BTs and organic carbon content, the significant correlations ($r^2$=0.4898 in surface sediments, $r^2$=0.53 in one core sediments) and no correlation in another core sediments obtained, which is estimated that the distribution of BTs in sediments were affected by several factors, such as their physicochemical properties including organic carbon content, and a tide, etc. In the relationships between the concentrations of total BTs and particle size (mud, sand, and gravel) in sediments, the concentrations of total BTs were higher in the sediments with higher mud content, indicating that higher BTs were distributed with increasing sediments of fine granules.