If it says “whole grain” it means the whole grain went into the food. If they removed the bran and the germ, then it’s not whole grain anymore and they couldn’t say on the ingredient list that it’s a whole grain.
Rice cakes are made by puffing the rice. You can do that to brown rice or white rice. I’m not sure if this puffing is as healthy as boiling the rice, BUT it’s certainly healthier to eat a whole grain rice cake than white bread or white rice cake. A whole grain rice cake is not equivalent to a refined grain.