I put my finger into my belly button just a little bit and kinda pulled the skin and it made my whole stomach hurt and when I get up my stomach hurts?

Tummy tug. Unlikely of any significance. If the abdominal pain persists consider evaluation. "it only hurts when i cough." groucho marx as the physician replied, "then don't cough anymore." unless necessary you may not want to pull the skin around the inside of your navel.