The shooting happened in the area of 21st and Diamond just before noon.
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"Three males boarded the bus in Center City. Once the bus arrived here at 21st and Diamond, it seems like five subsequent males got on, and altercations ensued at the rear of the bus. And after that altercation a gunshot was heard," said SEPTA Police Captain Kitt Walls.
Walls says one teen was shot in the groin and a passenger's leg was grazed by a bullet. Both victims are in stable condition.
Authorities are trying to figure out how the five teens knew to target this particular bus.
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Walls says with SEPTA's extensive surveillance system, it's only a matter of time before they're caught.
"The masks don't matter because we're coming for you and we're going to get you," he said.
Anyone with information on this shooting is asked to call Philadelphia police or SEPTA police.