If you'd like to use a web service to interact with BizTalk, it's best to generate one using the "Web Services Publishing Wizard" that gets installed inside Visual Studio. This builds a service for you based on BizTalk schemas or orchestrations, and contains the code necessary to publish a message into the BizTalk infrastructure. Once you have that service, you create a receive location that listens on that service location. When a mesage is posted to the service, it's grabbed by that port.
You can create a receive location with a URI pointing to the virtual directory you set up on IIS for the Web Service, using SOAP or WSE
e.g. "/Test/WebService1.asmx"
If you publish the web service using biztalk webservice wizard, a prompt will pop up to ask if you'd like a receive location created for you, all be taken care of
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