Yes, it can be done. Let me also say this, anything that can be done to reduce the amount of bends in the intecooler pipes should be done if at all possible. We all know that there are certain amounts of bends that you must have no matter what intercooler you have but, turning it around backwards and adding two more 90* bends is not going to help you with keeping pressure loss down.
Can you just straighten the fins or are they crushed?
Most fins can be strightened if they are not bent to baddly it just takes some time and patience.