| Standings | P | W | D | L | GD | PTS | |
|---|---|---|---|---|---|---|---|
| 1 | V-Varen Nagasaki | 37 | 19 | 12 | 6 | 19 | 69 |
| 2 | Mito Hollyhock | 37 | 19 | 10 | 8 | 19 | 67 |
| 3 | JEF United Chiba | 37 | 19 | 9 | 9 | 17 | 66 |
| 4 | Tokushima Vortis | 37 | 18 | 10 | 9 | 21 | 64 |
| 5 | Omiya Ardija | 37 | 18 | 9 | 10 | 22 | 63 |
| 6 | Vegalta Sendai | 37 | 16 | 14 | 7 | 12 | 62 |
| 7 | Jubilo Iwata | 37 | 18 | 7 | 12 | 7 | 61 |
| 8 | Sagan Tosu | 37 | 16 | 10 | 11 | 4 | 58 |
| 9 | Iwaki SC | 37 | 14 | 11 | 12 | 10 | 53 |
| 10 | Imabari | 37 | 13 | 14 | 10 | 5 | 53 |
| 11 | Montedio Yamagata | 37 | 14 | 8 | 15 | 3 | 50 |
| 12 | Hokkaido Consadole Sapporo | 37 | 15 | 5 | 17 | -16 | 50 |
| 13 | Ventforet Kofu | 37 | 11 | 10 | 16 | -8 | 43 |
| 14 | Blaublitz Akita | 37 | 11 | 10 | 16 | -13 | 43 |
| 15 | Fujieda MYFC | 37 | 9 | 12 | 16 | -8 | 39 |
| 16 | Oita Trinita | 37 | 8 | 14 | 15 | -15 | 38 |
| 17 | Roasso Kumamoto | 37 | 9 | 9 | 19 | -16 | 36 |
| 18 | Kataller Toyama | 37 | 8 | 10 | 19 | -18 | 34 |
| 19 | Renofa Yamaguchi | 37 | 6 | 15 | 16 | -12 | 33 |
| 20 | Ehime FC | 37 | 3 | 13 | 21 | -33 | 22 |
