Dear all,
I have been playing with BOGAS these days just checking at
Acetylcholinesterase genes, ... an "easy one" that has some interest for me
and have given me a chance for checking the system.
I have seen some problems (or it looks to me) in the correspondence of LOCUS
sequences with fasta sequences in the alignments at Blast. I have already
sent a message to beg-bogas@psb.ugent.be
I may be wrong in what I am doing... In fact, I think that it will be
desirable to have some clues before using BOGAS in order to maximise our
time (for example downloading sequences) and our best success in searching.
Anyway, I explain the problem:
If I do a Blastp against tetur_proteome_v000 with an ace gene from
Tetranychus, the first sequence appearing is Tetur18g02010.
If I access to the fasta sequence here, the sequence correspond to the
sequence in the alignment.
However, If I search the Locus ID Tetur18g02010 the program opens this LOCUS
ID that contains a protein sequence that do not correspond to an ace gene.
In addition, If I take the protein sequence at this locus and do a Blast as
I did before, the fist sequence in the aligments is another LOCUS:
Tetur18g01790...
If I take this sequence at Tetur18g01790 LOCUS and do again a Blast, another
sequence is the first in the aligments... and... you can continue with this
process always getting a different sequence...
Unless I am wrong, I think you should be care doing analysis till the
problem is solved.
Regards,
--------------------------------------------
Pedro Hernandez Crespo
Centro de Investigaciones Biologicas-C.S.I.C.
Lab. Interacciones Planta-Insecto (Lab240 / Lab202)
Ramiro de Maeztu 9
28040 MADRID
Tel: +34 91 8373 112 Ext 4393/4394
Fax: +34 91 5360 432
http://www.cib.csic.es/es/grupo.php?idgrupo=36
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