Two light blue colonies (there were no white colonies) were picked, restreaked on a new Kan50 plate (no X-gal) and PCR’d.
Master Mix:
2x Apex Red Master Mix - 37.5uL
10uM M13 Forward - 3uL
10uM M13 Reverse - 3uL
H2O - 46.5
Added 25uL to each PCR tube.
Cycling Params:
- 95C - 10mins
40 cycles of:
95C - 30s
55C - 30s
72C - 2mins
1 cycle:
- 72C - 10mins
Results:
The two pale blue colonies do NOT contain our desired insert. Despite the presence of a larger, faint band (~950bp), that is far smaller than our 5’RACE insert size (~1500bp). And, clearly, the primary amplicon produced is ~250bp, which is the expected size for empty vector… Ladder is Hyperladder I (Bioline).
Will need to re-do ligation reaction and will do so at the recommended volumes in the TOP TA (Invitrogen) protocol.