In the name of Allah, Most Gracious, Most Merciful
Assalaamu `alaykum waRahmatullahi Wabarakatoh
It is permissible to underline verses in the quran.One should avoid going over the actual verses.
And Allah knows best
Wassalam
Mufti Imran Hatia
Darul Iftaa, Madrassah In'aamiyyah