Why are you jogging? Are you doing it to lose fat, for cardio, or because you have to?( IE police, fire, military etc.)
Unless you have to jog, you should avoid it because it sounds like you're aggravating an injury. Are you sure it's not just soreness from not running often? When I first started jogging, I had to stop every 800 meters because the pain in my calves/shins was too much. I just kept jogging, and after a couple months I was able to run 7K no problem. ( I do twice a month, only because I have to).
If you HAVE to jog, go see a specialist and find out what the pain is from. If you can do other things but feel the need to jog anyway, start off slowly and see what happens.
On a side note, this board seems to be against jogging altogether, so it might not be the best place for this info.