Since 2015, Research Center for Oceanography has been appointed as a data custodian for coral reefs and seagrass by the National Geospatial Agency (BIG) of Indonesia. Hence, we provide geospatial information on coral reefs and seagrass throughout Indonesia. Our spatial data generated both from satellite data and fieldwork. We produced a reefs map of Indonesia on a 1:250.000 scale which was contributed to the one-map policy. Further, we produced benthic habitat maps in the 1:50.000 scale to fulfill national needs on coastal management and conservation. Our map contributes as an integral part of a national report on the status of coral reefs and seagrass which was published every year. The map can be accessed through our data website on http://pusdata.oseanografi.lipi.go.id.