Using GMAP, we have mapped individual ESTs with in-silico authenticated termini(us) to the draft genome. Our EST-Genome Browser lets users to visualize the gene structures with different zooming scales from 500 bp to 100 kbp. At the zoom level of 100 bp, users can see the gapped alignment of individual ESTs with the reference genome, which provides visualization of insertion, deletion and mismatches in terms of the genome sequence. Insertion is indicated by '-' in green color, mismatched nucleotides have gray background, and deletion is marked by red vertical bars. When users move their mouses over the red bars, the relevant nucleotides in deletion will be displayed. In particular, all EST termini (i.e., 5TSS, 3TSS, 5TNS and 3TNS) have been annotated with their genome locations. When we conducted EST-Genome mapping, we did not use reverse complement sequences for 3'-end ESTs. Therefore, we have created a diagram illustration that will help users to understand the relationships among genomic DNAs, mRNAs and EST termini so that they can interpret correctly the results that are interesting to them. |
Access our new version of EST-Genome-Browser
|
