<html><head><meta http-equiv="Content-Type" content="text/html charset=big5"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="" style="font-size: 15px;">Hi Dan,</div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;">I think we find the "origin-spanning" feature you mentioned. </div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;">The main problem is that we did not set sequence as circular before passing in annotation information. The objects and slice seems to be fine.</div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;">Thus, some changes were made and it was successfully stored into core db.</div><div class="" style="font-size: 15px;"><br class=""></div><div class=""><span class="" style="font-size: 15px;">However, we met several problems when withdrawing data from db, such as the wrong recording of “seq_region_start" and “seq_region_end" in gene table. </span></div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;">Before asking your help, we would like to look into those first.</div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;">Thanks very much for your kind help. </div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;"> Susan.</div><div class="" style="font-size: 15px;"><br class=""></div><div class="" style="font-size: 15px;"><br class=""></div><div><blockquote type="cite" class=""><div class="">Dan Staines <<a href="mailto:dstaines@ebi.ac.uk" class="">dstaines@ebi.ac.uk</a>> 於 2016年7月12日 上午1:26 寫道：</div><br class="Apple-interchange-newline"><div class=""><div class="">I'm afraid its not clear from your code what coordinates you are using for your exons, transcripts and genes in the case of a problematic gene. Can you please show exactly what coordinates are being used in each case and how they are being passed to the Exon and Transcript objects?<br class=""><br class="">Also, can you please share how you are creating the seq_regions/slices to which the genes are attached as this is also important.<br class=""><br class="">Thanks,<br class=""><br class="">Dan.<br class=""><br class="">-- <br class="">Dan Staines, PhD<br class="">Genomics Technology Infrastructure Coordinator<br class="">EMBL-EBI, Wellcome Trust Genome Campus<br class="">Cambridge CB10 1SD, UK<br class="">Tel: +44-(0)1223-492507<br class=""><br class="">_______________________________________________<br class="">Dev mailing list <a href="mailto:Dev@ensembl.org" class="">Dev@ensembl.org</a><br class="">Posting guidelines and subscribe/unsubscribe info: <a href="http://lists.ensembl.org/mailman/listinfo/dev" class="">http://lists.ensembl.org/mailman/listinfo/dev</a><br class="">Ensembl Blog: <a href="http://www.ensembl.info/" class="">http://www.ensembl.info/</a><br class=""></div></div></blockquote></div><br class=""></body></html>