| Pos | Team | Pld | W | D | L | GF | GA | GD | Pts | Qualification or relegation |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Sanfrecce Hiroshima(C) | 34 | 19 | 6 | 9 | 51 | 29 | +22 | 63 | Qualification for2014 AFC Champions League group stage[a] |
| 2 | Yokohama F. Marinos | 34 | 18 | 8 | 8 | 49 | 31 | +18 | 62 | |
| 3 | Kawasaki Frontale | 34 | 18 | 6 | 10 | 65 | 51 | +14 | 60 | |
| 4 | Cerezo Osaka | 34 | 16 | 11 | 7 | 53 | 32 | +21 | 59 | |
| 5 | Kashima Antlers | 34 | 18 | 5 | 11 | 60 | 52 | +8 | 59 | |
| 6 | Urawa Red Diamonds | 34 | 17 | 7 | 10 | 66 | 56 | +10 | 58 | |
| 7 | Albirex Niigata | 34 | 17 | 4 | 13 | 48 | 42 | +6 | 55 | |
| 8 | FC Tokyo | 34 | 16 | 6 | 12 | 61 | 47 | +14 | 54 | |
| 9 | Shimizu S-Pulse | 34 | 15 | 5 | 14 | 48 | 57 | −9 | 50 | |
| 10 | Kashiwa Reysol | 34 | 13 | 9 | 12 | 56 | 59 | −3 | 48 | |
| 11 | Nagoya Grampus | 34 | 13 | 8 | 13 | 47 | 48 | −1 | 47 | |
| 12 | Sagan Tosu | 34 | 13 | 7 | 14 | 54 | 63 | −9 | 46 | |
| 13 | Vegalta Sendai | 34 | 11 | 12 | 11 | 41 | 38 | +3 | 45 | |
| 14 | Omiya Ardija | 34 | 14 | 3 | 17 | 45 | 48 | −3 | 45 | |
| 15 | Ventforet Kofu | 34 | 8 | 13 | 13 | 30 | 41 | −11 | 37 | |
| 16 | Shonan Bellmare(R) | 34 | 6 | 7 | 21 | 34 | 62 | −28 | 25 | Relegation to2014 J.League Division 2 |
| 17 | Júbilo Iwata(R) | 34 | 4 | 11 | 19 | 40 | 56 | −16 | 23 | |
| 18 | Oita Trinita(R) | 34 | 2 | 8 | 24 | 31 | 67 | −36 | 14 |