Analyze this sequence to predict genes.
RepeatMasker has already been run on the sequence, and repeats have been
"soft masked" (i.e., replaced by lower-case letters).
Analyze the sequence with
GenScan and
blastn, searching both the
NR and EST databases. This morning (Sept. 1) I made those two blastn runs;
the NR run was given ID
1125592636-27389-195214800138.BLASTQ3
and the EST run was:
1125592823-6323-21651681574.BLASTQ2
Perhaps you can simply fetch these results, without having to wait for blast
to run.
Also, feel free to try other analysis tools.
For instance, using BLAT at the UCSC Genome Browser might prove useful.
Write a summary of your gene predictions, describing the evidence for them.
Explain what you learned about which tissues express the gene (or genes).
I'll be available most of Friday to answer questions, at webb@bx.psu.edu or in 506B Wartik Lab.
Sign up for a time to see me, in 514B Wartik Lab, in the morning of either Tuesday of Wednesday next week. Bring the write-up of your results for this assignments. We can talk about your results and some ideas for your class project.