Ó lọ sí ilé ẹ̀kọ́ alakọ́bẹ̀rẹ̀ Minor Seminary Formation ní Tiruvalla lati 1976 sí 1979. Ó gba iyì B.Phil. lati St. Joseph's Pontifical Institute, Mangalapuzha, Aluva, níbi tí ó tí o lati 1979 sí 1982. Ó gba iyì B.Th. lati Papal Seminary, Pune níbi tí ó ti kàwé lati 1983 sí 1986. Thottunkal di àlùfáà ní Ọjọ́ kọkànlá Oṣù kẹfà Ọdún 1986. Ó kàwé fún Master of Theology ní Dharmaram College, Bangalore lati 1986 sí 1989. Thottunkal ṣe Doctorate ní Ecumenical Theology lati Pontifical University of St. Thomas Aquinas (Angelicum), Rome ní Ọdun 1997.