you have to draw your alignment from down stream to up stream in civil 3d you cant reverse stationing in hec ras only you can reverse direction of flow and cross section.
step by step
in Civil 3D:
1. create polylines that represent the sections, bend as required.
2. create reach centerline alignment from downstream to upstream.
3. Create sample lines using the polylines from step 1.
4. run the hec-ras tool, then export the geo file.
In HEC-RAS:
1. Import the geo file, then under geometry editor, first run “GIS Tools>Reach Invert line table > reverse order ” to change direction of flow
2. from “GIS Tools> GIS cut line> reverse cut line ” to reverse cross sections