Download BACKGROUND: UvrC is a DNA repair enzyme found in all

BACKGROUND:
UvrC is a DNA repair enzyme found in all prokaryotes and its critical in maintaining
DNA integrity.
What You Need to Know:
NCBI Protein Blast
FASTA format
Blastp
Other sequence alignment tools…
YOUR JOB:
A. Find an amino acid sequence of UvrC from five different prokaryotic species
(one must be from E. coli strain K-12. No two people should have the same
sequences)
B. Do a sequence comparison of all the species to each other.
C. Generate a table like the one below for each combination.
D. Build a cladogram (phylogenetic tree) based on the data.
QUESTIONS:
1. The Data Table (for all combinations)
Organism
Accession
% Identity
Number
1.
2.
2. Cladogram (phylogenetic tree)
3. Turn in this page, all alignments, and the .docx file containing your five sequences
in FASTA format to edmodo.
4. Design primers to PCR out the endonuclease (HhH) domain of UvrC from E. coli.
Explain how you figured them out. Write out the two primers 5’ to 3’. This may take
some effort on your part. Use google…read about primer design…how long should
they be, GC content, etc… Figure it out!
Forward Primer
5’-
Reverse Primer
5’-