VTG as model
Blast using v010 as subject G -1 E -1 resulted in
several hits for
AB084783
very weak scores.
Best match is on v020
Essentially 2 contigs
Starting blasting of v020
reverse blasting with Sigenae8 on Server
bigfish:databases safs$ /common/clcbfxcell/blastall_cell -c cell_sw -a 10 -p blastn -m 8 -i /Users/safs/Dropbox/Cluster/tmp/cgigas_all_contigs_v8.fasta -d /common/clcbfxcell/databases/cgigas_alpha_v020.fasta > /Users/safs/Dropbox/Cluster/tmp/sigenae8_blast_v020.txt -G 1 -E 1 -b 50 -v 50
Other targets to validate
On Fri, Mar 2, 2012 at 9:55 AM, Mackenzie R Gavery
9:48 AM Mackenzie: AM076954.p.cg.8
that is the hexokinase mRNA
tried it in Splign and it predicted the correct structure based on the genomic sequence
9:55 AM Mackenzie: AJ558239.p.cg.8
9:56 AM that is the Sigenae for gluatmine synthetase (genomic: AJ564739)
do you want a few more?
12:06 PM
here are the Sigenae number for all the genes I have structure for. Using Spidey, the exons are not always predicted the same, but pretty close
