The method described for this track: "Methods
RefSeq RNAs were aligned against the human genome using blat; those with an alignment of less than 15% were discarded. When a single RNA aligned in multiple places, the alignment having the highest base identity was identified. Only alignments having a base identity level within 0.1% of the best and at least 96% base identity with the genomic sequence were kept." Hope this helps. Shuli On 11/22/2010 02:06 AM, zhangpeng2 wrote: > Dear editor > I download the file refGene.txt from the website > :http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/ . > But I found some lines have the same transcript ID but differeent > coordinates. As far as I know, the transcriptID is the uniq identifier of a > transcription. would you please tell me why? > for example: > > 1114 NM_000344 chr5 + 69345349 69373418 > 69345512 69372398 9 > 69345349,69359241,69361791,69362760,69363120,69365061,69366467,69372347,69372845, > > 69345593,69359313,69361911,69362961,69363273,69365157,69366578,69372401,69373418, > 0 SMN1 cmpl cmpl 0,0,0,0,0,0,0,0,-1, > 1120 NM_000344 chr5 + 70220767 70248838 > 70220930 70247818 9 > 70220767,70234665,70237215,70238184,70238544,70240484,70241892,70247767,70248265, > > 70221011,70234737,70237335,70238385,70238697,70240580,70242003,70247821,70248838, > 0 SMN1 cmpl cmpl 0,0,0,0,0,0,0,0,-1, > > my best, > thanks > > 2010-11-22 > > > > All my best > zhangpeng > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
