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Note from Instructor: I have lost my voice
to a sinus infection
and
cannot speak tonight. If you have questions, please send me email and
we'll
talk about these some more next Monday. My apologies!!!
Constructing phylogenetic trees At the bottom is a DNA sequence from an unknown mRNA. Do a FASTA
or BLAST
search (in fact, you are encouraged to try both and see if they give
the same result). and recover the full length cDNA. Do a restriction map
of the cDNA. Determine all possible ORFs (Open Reading Frames). Run a
BLAST search of the
largest
ORF. Pick four other related (not identical) proteins, preferably from
different species. Align all the sequences using PileUp, then use
Distances
and Growtree to create a
phylogenetic tree.
AGAAACGAAATAACCTTTGACAAGATTTTCAATCAGAAAATCGGCTTCCTGCTATTTAAAGATTTCTGC
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