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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’-
3’
(1pt) Oligo 2: 5’3’
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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’-
3’
(1pt) Oligo 2: 5’-
3’
Genetic Code:
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)
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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
(1pt) Oligo 1: 5’-
3’
Add 5’ BamHI site
(1pt) Oligo 2: 5’-
3’
12
Genetic Code:
12
12
_
12
1pt extra credit if you choose your
oligos wisely!