| 1 | ER-MT; MT-ER | 6219 |
| 2 | ER-PM; PM-ER | 154 |
| 3 | ER-Peroxisome; Peroxisome-ER | 91 |
| 4 | ER-LD; LD-ER | 87 |
| 5 | MT-Peroxisome; Peroxisome-MT | 71 |
| 6 | ER-Endosome; Endosome-ER | 52 |
| 7 | Peroxisome-Vacuole; Vacuole-Peroxisome | 47 |
| 8 | LD-PM; PM-LD | 41 |
| 9 | GA-Peroxisome; Peroxisome-GA | 38 |
| 10 | ER-GA; GA-ER | 33 |
| 11 | ER-Vacuole; Vacuole-ER | 20 |
| 12 | ER-LY; LY-ER | 18 |
| 13 | MT-LD; LD-MT | 18 |
| 14 | ER-Parasitophorous vacuole; Parasitophorous vacuole-ER | 9 |
| 15 | MT-Vacuole; Vacuole-MT | 10 |
| 16 | Nucleus-Vacuole; Vacuole-Nucleus | 10 |
| 17 | LY-GA; GA-LY | 8 |
| 18 | ER-Autophagosome; Autophagosome-ER | 7 |
| 19 | ER-Phg; Phg-ER | 7 |
| 20 | MT-Endosome; Endosome-MT | 6 |
| 21 | IM-ER; ER-IM | 5 |
| 22 | MT-LY; LY-MT | 5 |
| 23 | Peroxisome-LD; LD-Peroxisome | 4 |
| 24 | LD-LD | 4 |
| 25 | ER-Autolysosome; Autolysosome-ER | 4 |
| 26 | LD-Parasitophorous Vacuole; Parasitophorous Vacuole-LD | 4 |
| 27 | MT-PM; PM-MT | 3 |
| 28 | GA-Endosome; Endosome-GA | 3 |
| 29 | LY-Peroxisome; Peroxisome-LY | 3 |
| 30 | ER-Phagophore; Phagophore-ER | 3 |
| 31 | LD-Vacuole; Vacuole-LD | 3 |
| 32 | ER-MT-PM; PM-MT-ER | 2 |
| 33 | LY-LD; LD-LY | 2 |
| 34 | ER-MVB; MVB-ER | 2 |
| 35 | PM-Peroxisome; Peroxisome-PM | 2 |
| 36 | Endosome-Mitosome; Mitosome-Endosome | 2 |
| 37 | Nucleus-MT; MT-Nucleus | 2 |
| 38 | PM-WP body; WP body-PM | 2 |
| 39 | ER-Vesicle; Vesicle-ER | 2 |
| 40 | MT-Pellicle; Pellicle-MT | 2 |
| 41 | ER-Prospore membrane; Prospore membrane-ER | 2 |
| 42 | MT-GA; GA-MT | 1 |
| 43 | ER-Transport vesicle; Transport vesicle-ER | 1 |
| 44 | MT-Endolysosomes; Endolysosomes-MT | 1 |