| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Agulhas Current | Sea/Bay/Gulf | native | 7248 |
| Bay of Bengal | Sea/Bay/Gulf | native | 5736 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| East China Sea | Sea/Bay/Gulf | native | 47843 |
| Erhjen River | River (basin) | native | 36073 |
| Ethiopian | Zoogeographic realm | native | 4180 |
| Godavari | River (basin) | native | 51036 |
| Gulf of Aden | Sea/Bay/Gulf | native | 117436 |
| Indian Ocean | Sea/Bay/Gulf | native | 33390 |
| Indonesian Sea | Sea/Bay/Gulf | native | 4318 |
| Kaoping River | River (basin) | native | 36073 |
| Malacca Strait | Sea/Bay/Gulf | native | 121464 |
| Manila Bay | Sea/Bay/Gulf | native | 35686 |
| Mekong | River (basin) | native | 12693 |
| North Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Oriental | Zoogeographic realm | endemic | 45255 |
| Ormoc Bay | Sea/Bay/Gulf | native | 45205 |
| Pacific Ocean | Sea/Bay/Gulf | native | 7300 |
| Pagbilao Bay | Sea/Bay/Gulf | native | 11338 |
| Red Sea | Sea/Bay/Gulf | misidentification | 120578 |
| Sabaki | River (basin) | native | 30558 |
| San Miguel Bay | Sea/Bay/Gulf | native | 45674 |
| Shihtsao River | River (basin) | native | 36073 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 30558 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern China | Sea/Bay/Gulf | native | 119494 |
| Taal Lake | Lake | native | 12165 |
| Tanshui River | River (basin) | native | 36073 |
| Zambezi | River (basin) | native | 39494 |