<html><head></head><body><div style="color:#000; background-color:#fff; font-family:Helvetica Neue, Helvetica, Arial, Lucida Grande, sans-serif;font-size:10px"><div id="yui_3_16_0_ym19_1_1499248527573_10166">Dear all,</div><div id="yui_3_16_0_ym19_1_1499248527573_9990"><br></div><div id="yui_3_16_0_ym19_1_1499248527573_9991">Does anybody have some code to convert transcript coordinates to genome coordinates?<br>I have the position of a nucleotide along a transcript, and the genome coordinates of the start and end of each exon in the transcript, and I would like to find the position of the nucleotide in genome coordinates.</div><div id="yui_3_16_0_ym19_1_1499248527573_10091">Ideally, I am looking for some code that can find the genome coordinates of a sequence of nucleotides.</div><div id="yui_3_16_0_ym19_1_1499248527573_10145">For example, if these are the exons:</div><div id="yui_3_16_0_ym19_1_1499248527573_10146">exon1 10000 10030</div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10101">exon2 10050 10080</div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10147">and a nucleotide sequence starting at position 20 and ending at position 50 in transcript coordinates,<br></div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10148">then I am looking for the genome coordinates (10020,10030), (10050,10070).</div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10157"><br></div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10158">Thanks,</div><div dir="ltr" id="yui_3_16_0_ym19_1_1499248527573_10198">-Michiel<br></div></div></body></html>