I have this assignment question
You found that the DNA sequence of 7th exon on the CYP2D6 gene from Paul as below, please explain whether he should take prescribed methadone like most of other adults? Explain your reason. ACCGTGTCCAACAGGAGATCGACGACGTGATAGGGCAGGTGCGGCGACCAGAGATGGGTGACCAGGCTCACATGCCCTACACCACTGCCGTGATTCATGAGGTGCAGCGCTTTGGGGACATCGTCCCCCTGGGTGTGACCCATATGACATCCCGTGACATCGAAGTACAGGGCTTCCGCATCCCTAAG
I have compared this sequence with reference exon 7 from cyp2d6 and found that the first letter in the reference sequence is a G, but my guy has an A. So Ive translated to protein and a reference sequence would be Alanne whereas my guy paul would have Threonine.
i also found that it would not show me an open reading frame unless i put exon 6 in front of the sequences.
but now I am stuck on where I go from here and beginning to panic. I am a complete newbie to bioinformatics. ANY HELP ASAP WILL BE APPRECIATED.
i used multialin for translating nucleotide sequence to protein. And expasy to see open reading frames.
Hi Tiff
try to blast your sequence in one of the tools from UCSC (http://genome.ucsc.edu/cgi-bin/hgBlat?hgsid=661182657_mphaKldZ76RDZczgw2RPdRArE1rF&command=start) and see in the browser if it's a location for a known SNP (there are lot of options in the UCSC genome browner, one of these in nation is common SNPs(150) that allow you to access the dbSNP knowledge). if you can't find, try the VEP from ensembl (http://grch37.ensembl.org/Homo_sapiens/Tools/VEP) and see the prediction of this variant on your protein...
fred
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