To whom it may concern,
I just submitted a chromosomal coordinates file (Exons +/- 50 +
promoters) for a panel of 45 genes to the Ampliseq design tool. I have the
results.
When I take a primer and BLAST it, I find that the match is 10,000 nt
different from the input: BLAST match starts at 41166539 in chr 5, targeted
coordinates were 41176539.
The amplicons cover the targeted regions based on the coordinates
supplied by the UCSC Browser for GRHCh37/hg19. But I notice that the BLAST
match coordinates are given for GRChr37.p5. What is the difference between
/hg19 and .p5, and why is there a 10,000 nt difference?
Thanks.
Paul Reynolds
Paul R Reynolds, PhD
Associate Professor
Department of Pediatrics
Neustadt Building, Room D311
National Jewish Health
1400 Jackson Street
Denver, CO 80206
303-398-1419
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