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| 1st(1st leg) | FK Mladá Boleslav | - | 1. FC Slovácko | 3:1 (1:1) | ||
| 2nd (2nd leg) | 1. FC Slovácko | - | FK Mladá Boleslav | 0:1 (0:1) | ||
| 1st(1st leg): 02/04/2013 15:00 | 2nd (2nd leg): 10/04/2013 17:00 | Winner: FK Mladá Boleslav | ||||
| 1st(1st leg) | FK Baumit Jablonec | - | Viktoria Plzeň | 2:1 (0:1) | ||
| 2nd (2nd leg) | Viktoria Plzeň | - | FK Baumit Jablonec | 3:4 (0:2) | ||
| 1st(1st leg): 03/04/2013 15:30 | 2nd (2nd leg): 10/04/2013 17:00 | Winner: FK Baumit Jablonec | ||||
| 1st(1st leg) | Slovan Liberec | - | FK Teplice | 2:0 (2:0) | ||
| 2nd (2nd leg) | FK Teplice | - | Slovan Liberec | 2:2 (1:1) | ||
| 1st(1st leg): 03/04/2013 17:00 | 2nd (2nd leg): 16/04/2013 16:30 | Winner: Slovan Liberec | ||||
| 1st(1st leg) | Sigma Olomouc | - | AC Sparta Praha | 2:4 (0:0) | ||
| 2nd (2nd leg) | AC Sparta Praha | - | Sigma Olomouc | 4:2 (1:0) | ||
| 1st(1st leg): 03/04/2013 17:00 | 2nd (2nd leg): 16/04/2013 19:15 | Winner: AC Sparta Praha | ||||
