The tentative total number of seats available for BS-MS/BS programs is 2363, with each IISER having the following number of seats.
| BS-MS Program | Number of Seats |
| IISER Berhampur | 300 |
| IISER Bhopal | 300 |
| IISER Kolkata | 280 |
| IISER Kolkata (BS-MS in Computational and Data Sciences) | 30 |
| IISER Mohali | 270 |
| IISER Pune | 288 |
| IISER Tirupati | 350 |
| IISER Thiruvananthapuram | 320 |
| B. Tech. / BS Program | Number of Seats |
| IISER Bhopal (B. Tech.) | 140 |
| IISER Bhopal (BS in Economic Sciences) | 35 |
| IISER Tirupati (BS in Economic and Statistical Sciences) | 50 |
| Total | 2363 |