OK, I'll try and explain it with sprites. You know how you can make sprite images with RGBA? With the alpha value, it's possible to make specific areas of the sprite anywhere between not transparent (a=255) and completely transparent (a=0).
This however isn't possible with textures for 3D objects (at least to my knowledge). What if I wanted to make a window on my texture, and have only the window be slightly transparent, but still a little bit visible, yet the rest of the image should be not transparent at all?
TheComet