There is practically no difference between a regular and second shift course in B.E./B. tech from any college.

For 2nd Shift, classes might start from 11am instead of 9am(regular time) it will end before 5pm.

That is well within the college timing of 9–5.

Even if you get it under 2nd shift ,  there is no difference in the degree or the college timings.

Best of luck..