Owen Coyle felt it was a real kick in the teeth as Bristol City struck late to steal the points.
Rovers controlled the match for long spells at Ashton Gate but couldn't turn their performance into goals as Aaron Wilbraham's deflected strike two minutes from time saw the Robins claim the win.
The manager felt the result was cruel on Rovers and believed they did enough to head back north with something from the match.
"I think it is a huge disappointment for all of us as I felt we were excellent today," said Coyle.
"In the first half I felt we controlled the game and should have been in front. They had a little period in the second half, but then we started getting to grips with it again and created one or two chances.
"But then we've got a corner and from that the boy has whacked one up the park and it is there for us to deal with, we've made a mistake and even then we got men back to challenge the ball but it takes a wicked deflection. So it was really cruel.
"The level of performance was high, and normally if you perform like that on the road it results in not only one point but often three so it is a huge disappointment."
Rovers are back in action at Ewood Park next Saturday when Wolverhampton Wanderers visit in the 5.30pm kick-off.
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