1. Quiz#4 LC710 10/04/10 name___________
Q1:Given the following “sense strand” sequence to the Ubx homeodomain:
5’-cgaagacgcggccgacagacatacacccgctaccagacgctcgagctgga
gaaggagttccacacgaatcattatctgacccgcagacggagaatcgaga
tggcgcacgcgctatgcctgacggagcggcagatcaagatctggttccag
aaccggcgaatgaagctgaagaaggagatccag-3’
Design a 5’ and 3’ oligo so that you can amplify this sequence by PCR for future cloning.
(1pt)
Oligo 1: 5’ ’
Oligo 2: 5’ ’
(1pt)
_____________________________________________________
Q2: You have identified the 61aa UBX conserved HOMEDOMAIN protein sequence:
Nt-RRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQ-Ct
Design a 5’ and 3’ oligo from the ends so that you can amplify it by PCR from ANY other organisms.
(1pt)
Oligo 1: 5’ ’
Oligo 2: 5’ ’
(1pt)
Genetic Code:

2. Q3:Given the following protein alignment
for part of the UBX protein from 7 species:
EcoR1: GAATTC
BamHI: GGATCC
X=a non consensus amino acid
_____________________________________
Make Consensus (1pt)
Using consensus amino acid sequence:
Design a 5’ and 3’ oligo so that you can amplify some of this homology region from species #1.
Add 5’ EcoR1 site
Oligo 1: 5’ ’
Oligo 2: 5’ ’ _
(1pt)
Add 5’ BamHI site
(1pt)
1 2
1 2
1 2
1 2
1pt extra credit if you choose your
oligos wisely!
Genetic Code: