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Intron/Exon Splice Sites
by Scott Cooper (University of WisconsinóLa Crosse, cooper@mail.uwlax.edu)
When sequencing genomic DNA it is often difficult to identify a gene, or to determine which regions of a gene would encode for protein. With the many genome projects underway this is a common issue, and researchers use computer programs to look for several components of a gene. These can include long open reading frames, intron/exon splice sites, poly adenylation signals and CpG islands.
GENSCAN
This program allows you to look for intron/exon splice sites, promoters and polyadenylation sequences. It will also link the various exons together to produce a long translated protein that you can use to search databases.
Analysis of Results
A table of predicted exons and their translated amino acid sequence and coding DNA sequence (CDS) will be generated.
The Table will indicate the beginning and end of each exon, an explanation
of terms is provided below.
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The program will also link all of the exons together
into a coding DNA sequence (like a cDNA) which will then be translated
into protein.
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| If you select Predicted CDS and peptides under Print options, then the program will also display the coding sequence of DNA. |
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