The basic difference between CSE and IT is that IT is solely a software engineering. It rests only with the software part while CSE includes both hardware and software.
CSE deals with, along with the software subjects, hardware sujects as well like Compiler, Automata. These are all machine and hardware related subjects while designing of Algorithms, details of OS are few concerns of IT, all software!
Computer Science is a field of science which deals with theory and foundation of information and computations and their application in computer fields, a very good example is Computer Graphics
on the other hand Information Technology and the name suggests is more related to PROCESSING and MANAGING of information in an environment. That's y we'll never come to here CS companies, rather we say IT companies ..