No he won't. Sasuke's Rinnengan instantly dispelled a long time working infinite tsukuyomi without time issue. Infact he was never affected by it, simply because he possess a high degree of dojutsu making him practically immune. His Rinnengan dispelled the genjutsu instantly. The seconds thing of Tsukuyomi matters not against dojutsus level mastery on similar or greater levels. Not to mention that inside the illusion, it actually takes 72 hours most
You are contradicting yourself in the first line.
Dispelling a genjutsu =/= not getting effected by it.
Example :
A blind person cannot get effected by a visual genjutsu.
Sasuke can easily dispel most visual genjutsu.
In our case, Sasuke was never affected by IT in the first place as the susano protected him and the others.
Though i agree with your main point, kakashi can dispel itachi's genjutsu because of his years of experience in sharingan.