Multiple sequence alignment  (Page 2/3)

At the top of the page, a table contains several choices. There a link to the home page for the alignment editor Jalview,there is a button, labeled "Start Jalview",which is a link to the multiple sequence alignment results in the graphical format produced by the Jalview editor. Choose the "Start Jalview" buttonto view the alignment results. The sequences are labeled at the left and a bar graph below the sequences indicates which regions have high conservation or similarity. The cardiac isoform of troponinI is roughly 30 amino acids longer than the other two isoforms.

Take a look at the color scheme of the alignment. Regions of the sequence with identical amino acids are colored the same, but notice that regions of thesequence with similar amino acids have also been colored alike. Usually these color schemes have groups consisting of hydrophobic amino acids,hydrophilic amino acids, positively-charged amino acids, and negatively-charged amino acids. Sometimes these large color groups are divided further todistinguish between sidechain lengths, the aromatic sidechains, glycines and prolines.

Try one more multiple sequence alignment, analyzing CFTR sequences from several different species. Return to the ClustalW submission page. Cut and paste the CFTR sequences listed below from three species into the query submission box and run the multiple alignment.