Shinji's mouth UP. He appears to have a nosebleed. We can't see the expression of his eyes.
Shinji:“…I'm not piloting it by choice either.”
Keisuke-kun: When doesn't Shinji pity himself?
OMF: I think Shinji's is specifically responding to the news of Toji's sister here, rather than to just being hit. The revelation that someone has been hurt because of his actions is deeply unsettling to Shinji. He's trying to alleviate his own guilt here, I think, not simply make Toji feel guilty.