Description
This track contains tBLASTn alignments of the peptides
from the predicted and known genes indentified in the hg16 Known Genes track as
of 27 May 2004.
Methods
First the predicted proteins from the human Known Genes track were aligned with
the human genome using the BLAT program to discover exon boundaries.
Next the amino acid sequences that make up each exon were aligned with the
$organism sequence using the tBLASTn program.
Finally the putative $organism exons were chained together using an organism-
specific maximum gap size (27,000 bp) but no gap penalty. The single best exon chains
extending over more than 60% of the query protein were included. All exon chains
that matched at least 60% of the protein's amino acids were also included.
Credits
tBLASTn is part of the NCBI Blast tool set. For more information on Blast, see
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990)
Basic local alignment search tool. J. Mol. Biol. 215:403-410.
Blat
was written by Jim Kent. The remaining utilities required to produce this track
were written by Jim Kent or Brian Raney.