I'm creating an application in the .NET framework(in the language of C# to be precise). I want to publish it to the internet as soon as i finished. My application uses the .NET framework 3.5. So, is it legally allowed to distribute an application(in a .zip form) with the .NET framework(inside the zip file) to run the application?(in my case .NET 3.5).
Your question isn't clear - when you say "with the .NET framework(inside the zip file)" I'm assuming you mean the Redistributable Package, rather than the actual zipped-up framework itself.
If so, see Redistributing the .NET Framework [3.5]:
The Microsoft Software License Terms for the .NET Framework give you specific rights to redistribute the .NET Framework. You can manually launch and install the .NET Framework on a computer, install it across a network using an electronic software distribution tool, or launch and install it as part of the setup program for a .NET Framework application.
The rest of the page has more details.