For the first through train from Howrah to Delhi in 1864, coaches were ferried on boats across the Yamuna at Prayagraj With the completion of the Old Naini Bridge across the Yamuna through trains started running in 1865–66.

[10] Prayagraj is amongst the top hundred booking stations of Indian Railway.

[12] The railways make special arrangements for the huge influx of pilgrims for the Kumbh Mela at Prayagraj.

[13][14][non-primary source needed] Prayagraj Junction is an 'A' grade railway station.

The North Central Railways (NCR) have introduced airport like boarding facility so that the passengers will be issued boarding pass to avail facilities at the junction from new state of the art check-in counters.