| Ecosystem | Type | Status | Ref. |
|---|---|---|---|
| Aborlan | Sea/Bay/Gulf | native | 114805 |
| Agulhas Current | Sea/Bay/Gulf | native | 5213 |
| Andaman Sea | Sea/Bay/Gulf | native | 5736 |
| Arabian Sea | Sea/Bay/Gulf | native | 3287 |
| Atulayan Bay | Sea/Bay/Gulf | native | 41469 |
| Bay of Bengal | Sea/Bay/Gulf | native | 3287 |
| Brooke's Point | Sea/Bay/Gulf | native | 114805 |
| Brooks Banks | Seamount | stray | 35722 |
| Calamianes Islands | Sea/Bay/Gulf | native | 48613 |
| Chilika Lake/Lagoon | Lagoon | native | 29108 |
| Coral Sea and GBR | Sea/Bay/Gulf | native | 7300 |
| Dauin-Apo I. | Sea/Bay/Gulf | native | 127519 |
| East Central Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Great Barrier Reef | Sea/Bay/Gulf | native | 1602 |
| Gulf of Aden | Sea/Bay/Gulf | native | 3287 |
| Gulf of California | Sea/Bay/Gulf | native | 115151 |
| Gulf of Thailand | Sea/Bay/Gulf | native | 3287 |
| Honda Bay | Sea/Bay/Gulf | native | 71000 |
| Indian Ocean | Sea/Bay/Gulf | native | 1602 |
| Indonesian Sea | Sea/Bay/Gulf | native | 3287 |
| Insular Pacific-Hawaiian | Sea/Bay/Gulf | native | 3287 |
| Kimbe Bay | Sea/Bay/Gulf | native | 28888 |
| Kingman Reef | Sea/Bay/Gulf | native | 72402 |
| Kuroshio Current | Sea/Bay/Gulf | native | 559 |
| Lagonoy Gulf | Sea/Bay/Gulf | native | 43283 |
| Lanuza Bay | Sea/Bay/Gulf | native | 104756 |
| Leyte Gulf | Sea/Bay/Gulf | native | 31411 |
| Lingayen Gulf | Sea/Bay/Gulf | native | 5399 |
| Milne Bay | Sea/Bay/Gulf | native | 41468 |
| Narra | Sea/Bay/Gulf | native | 114805 |
| North Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northeast Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Northwest Australian Shelf | Sea/Bay/Gulf | native | 7300 |
| Pacific Central-American Coastal | Sea/Bay/Gulf | native | 3287 |
| Pacific Ocean | Sea/Bay/Gulf | native | 7300 |
| Peng-hu Island | Sea/Bay/Gulf | native | 55073 |
| Persian Gulf | Sea/Bay/Gulf | native | 3287 |
| Peru-Galapagos Waters | Sea/Bay/Gulf | native | 5227 |
| Polynesian Waters | Sea/Bay/Gulf | native | 4795 |
| Rapa-Pitcairn | Sea/Bay/Gulf | native | 121505 |
| Red Sea | Sea/Bay/Gulf | native | 84159 |
| Ruerhmen River | River (basin) | native | 36073 |
| Saint Rogatien Bank | Seamount | stray | 35722 |
| San Miguel Bay | Sea/Bay/Gulf | native | 43275 |
| Somali Coastal Current | Sea/Bay/Gulf | native | 3287 |
| Sorsogon Bay | Sea/Bay/Gulf | native | 47531 |
| South China Sea | Sea/Bay/Gulf | native | 36648 |
| Southern Palawan | Sea/Bay/Gulf | native | 114805 |
| Spratly Islands | Sea/Bay/Gulf | native | 48445 |
| Sulu-Celebes Sea | Sea/Bay/Gulf | native | 42419 |
| Tahiti Basins | River (basin) | native | 3287 |
| Tahiti I. | Sea/Bay/Gulf | native | 3287 |
| Tubbataha Reefs | Sea/Bay/Gulf | native | 53416 |
| Yellow Sea | Sea/Bay/Gulf | native | 4868 |