Hello!

Yes, you need to separately fill the forms after jee exam.

The main counselling form for jee exam is JoSAA. JoSAA.

JoSAA is responsible for the entire selection or admission procedure in IITs, NITs, IIITs, and other GFTIs. The registration for this will start in June 16 (tentative date) 2020.

For other private coleges and other institues, you need to separately fill the form for each one of them that you chose & those who accept jee scorecard like mit pune, amity university, ptu jalandhar, Dtu delhi, galgotias, etc. Check their websites for last date of application for comment down below and ask for the date of specific college that you're targeting.

I hope this was helpful.