Some of the top colleges for engineering in Pune for Mtech are:

COEP
BVP
MIT, Pune
MIT College of Engineering, Pune
Pune Institute of computer technology, Pune

You can check the complete list here:

Top Engg Colleges in Pune

They take through GATE entrance.
Also you can check GATE cutoff for various IIT's below:

GATE Cutoff 2017
You will get a score idea through this.

Also to check cutoff for all colleges in Pune through GATE, check the link below:

GATE cutoff in Pune colleges

Good luck!