Hi, I've downloaded the hg18 CDS sequence as follows: assembly: mar 2006 group: genes and gene prediction track track: refseq genes table: refGene and then output format: sequence and then select mRNA on the following page
I notice that many cds sequences do not start with ATG and this does not seem to be due to strand. I also notice that many cds sequences do not end with the three canonical stop sites (TAG, TGA,TAA) I am computing codon bias which is extremely sensitive to frame ship so I want to be absolutely sure that I have the right codons. Can you please help me understand how I can go about processing this data so that I have the right frame (even though say the exact CDS start or the stop site is unknown) --Thanks Lee _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
