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With the information you have given, I am going to assume that this is a single part file. If so, you can't have both opaque and transparent features in the same part file. If you want a certain item to be transparent, you have to make the entire part transparent.
So, your clear blue piece will have to be a separate part than your red piece.
If my assumption is incorrect, please post your parts here so we can help you better.
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Not sure which version you are using, but in 2012 if you go here
after selecting the part, if you select one of the transparent selections, it will be come transparent. As you can see.
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Attach the assembly here.
First thing I notice is only one feature in the part.
What if you set the color at the part level rather than at the feature (Revolution) level?
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