Herb with black fruit shedding end of skin (6)
I believe the answer is:
Here is my best explanation:
'herb' is the definition.
(borage is a kind of herb)
'black fruit shedding end of skin' is the subsidiary indication.
I cannot quite see how this works, but
'black' could be 'b' (as in pencil classifications) and 'b' is present in the answer.
'of' could be 'o' and 'o' is present in the answer.
The remaining letters 'rage' is a valid word which might be clued in a way I don't understand.
This explanation may well be incorrect...
'with' is the link.
(Other definitions for borage that I've seen before include "Herbaceous plant with bright blue flowers", "Blue-flowered plant with hairy leaves", "Herb", "Blue-flowered herb", "Aromatic herb" and "Bag ore for the plant".)