| Group I | 17/09/2015 | ACF Fiorentina | - | FC Basel 1893 | 1:2 |  |
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| Group I | 01/10/2015 | FC Basel 1893 | - | Lech Poznań | 2:0 | ||||
| Group I | 22/10/2015 | FC Basel 1893 | - | Os Belenenses | 1:2 | |
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| Group I | 05/11/2015 | Os Belenenses | - | FC Basel 1893 | 0:2 | ||||
| Group I | 26/11/2015 | FC Basel 1893 | - | ACF Fiorentina | 2:2 |  |
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| Round of 32 | 18/02/2016 | AS Saint-Étienne | - | FC Basel 1893 | 3:2 | ||||
| Round of 32 | 25/02/2016 | FC Basel 1893 | - | AS Saint-Étienne | 2:1 | ||||
| Round of 16 | 10/03/2016 | FC Basel 1893 | - | Sevilla FC | 0:0 | ||||
| Round of 16 | 17/03/2016 | Sevilla FC | - | FC Basel 1893 | 3:0 |
Czech Republic