| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Andaman Sea | Sea/Bay/Gulf | native | 3408 |
| Atulayan Bay | Sea/Bay/Gulf | native | 41469 |
| Australian | Zoogeographic realm | native | 6390 |
| Bay of Bengal | Sea/Bay/Gulf | native | 1479 |
| Chiku River | River (basin) | native | 36073 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| East China Sea | Sea/Bay/Gulf | native | 11230 |
| Gulf of Oman | Sea/Bay/Gulf | native | 47533 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 3408 |
| Indian Ocean | Sea/Bay/Gulf | native | 9685 |
| Indonesian Sea | Sea/Bay/Gulf | native | 3408 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Mekong | River (basin) | native | 12693 |
| North Australian Shelf | Sea/Bay/Gulf | native | 6390 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 6390 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 6390 |
| Oriental | Zoogeographic realm | native | 2682 |
| Pacific Ocean | Sea/Bay/Gulf | native | 6390 |
| Palearctic | Zoogeographic realm | native | 47533 |
| Persian Gulf | Sea/Bay/Gulf | native | 41639 |
| San Miguel Bay | Sea/Bay/Gulf | native | 43275 |
| San Pedro Bay | Sea/Bay/Gulf | native | 46241 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 393 |
| Taal Lake | Lake | native | 80679 |
| Tanshui River | River (basin) | native | 36073 |
| Tsengwen River | River (basin) | native | 36073 |
| Yellow Sea | Sea/Bay/Gulf | native | 11230 |