The need and concern about ecosystem are growing rapidly. However, ecosystem management systems are still in the first stage since the data are handled locally and separately. It results in the waste of money and time. In this research, we designed and implemented ecosystem management system of stream region using geographical information system(GIS) that is able to be used to manage the natural resource efficiently. It is expected to be used as a useful tool for Improvement of environment and management of ecosystem as well as recovery of natural environment.