Countdown Timer to play across the game with arrow keys used for navigation

Hi Everyone 

I am facing a challenge to play countdown timer in storyline 2 game course that is being developed. In the game there are 10 questions, a countdown timer of 100 secs is to be used with color codes around the timer. The navigation is being done through arrow keys. The color changes from green to red as the timer goes from 100 to 0. 

Gameplay - There are 5 objects on the screen and a mascot with ball. The mascot throws the ball at an object which decides if it correct or incorrect answer, and then a gif/swf animation plays. 

I have been able to figure out how to get the countdown timer to go from 100 to 0 throughout the game but facing a challenge with color change. I tried placing a gif, swf file and calling js code through weblink feature, in the master slide. Everytime the question changes the gif/swf resets to start position. If i use the js code then the arrow keys that are used for navigation stop working. 

I am working on a very short deadline and would really appreciate help from all of you to resolve the issue. 

Thanks 

AC