Thanks for the reply.
By hotspots, I mean areas on the page that you specifically define as interactive areas which can be clicked or hovered upon on the webpage.
Please see this example of the Hotspot functionality in Fireworks. https://www.youtube.com/watch?v=YS2r28yxYr0
This is common in most of the prototyping tools like InVision, Fireworks, Marvel etc.
So, was expecting if there is one in Hype as well. But, I will try your solution of having a button of the desired size over an area and setting it opacity to zero.