| 1) once you cut out the image, you have one of two options depending on what you did.
A) if you cut the image out of the background, just make a new file (ctrl+n). The dimensions on the new document will be automatically set to the size of what you have cut.*
B) if you cut the background out from around the image, press ctrl+a (to select all), edit->copy, then make a new file as described above.*
*I would either save your new file as a .psd (Photo Shop Document), or a .png (Portable Networks Graphic) file. Those are two file types which I am sure support transparency.
2) Umm... Copy and Paste? Maybe I'm not understanding you correctly...
3) At the moment there is not a way to incorporate javascript while in photoshop. You'll probably need to look into DreamWeaver for that.
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