*The picture in the header was taken from here.
This web page was produced as an assignment for Genetics 677, an undergraduate course at UW-Madison.
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Sequence Alignment
Phylogeny trees are important to show how well conserved a particular gene is across species. If a gene is conserved across many species, it signifies that it is an important gene and usually is required for the survival of the organism. Besides that, the phylogeny tree allows us to see how well conserved a gene is in a particular organism to determine whether the organism is suitable to be used as a model organism for a particular research. If an organism has a highly conserved gene or protein of our interest, we could use it for further research or drug testings.
DNA alignment was done using the ClustalW2, MUSCLE and T-Coffee algorithm but since the sequences were too long, MUSCLE and T-Coffee could not align them.
The ClustalW2 algorithm managed to align them but the alignment was of poor quality. This is due to the big differences in the sequence length of all homologs: the human copy is 101780bp long while mosquito copy is only 3449 bp long.
Sequence Alignment Data
clustalw2_dna_sequence_alignment.docx | |
File Size: | 813 kb |
File Type: | docx |
Phylogeny
Since there is not a good set of aligned sequences, no phylogeny tree was drawn. However, the phylogenetic relationship among the gene homologs can be inferred via the phylogenetic relationship of the protein homologs.
On a side note, if interested, TreeFam has a tree of ubiquitin-protein ligase family.
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Created by Jonathan Mok
[email protected]
Last updated 02/23/2012
Genetics 677
Created by Jonathan Mok
[email protected]
Last updated 02/23/2012
Genetics 677