Hii aspirant..

It is not compulsory to do your masters that is MSc from the same college from where you have done your bachelors that is BSC in agriculture. Agriculture is a white field of education. I am providing the list of best MSc colleges in India. The colleges are-

• Tamil Nadu Agricultural University.
• Punjab Agricultural University.
• Jawaharlal Nehru Krishi Vishwavidyalaya.
• Sardar Vallabhbhai Patel University of Agriculture and technology. 
• Shivaji University.
• Indian Agricultural Research Institute.
• Bharati Vidyapeeth University.
• RIMT University. 
• Mahatma Gandhi phule Krishi Vishwavidyalaya.

These are the best colleges for doing Msc. in Agriculture in India. 

Hope it helps you. 

Best of luck for your future.