Hi Woody, The 3 utr for the said transcript runs across 3 exon. The first exon is a coding exon and therefore you dont see any 3 utr coordinates with it. The second exon is a partial coding, and hence you see an entry for 3 utr coordinates (48735862-48735907). And last two are untranslated exons too.
The best way to get this right is to add exon coordinates as well (Exon Chr Start and Exon Chr End) HTH, Syed > -------- Original Message -------- > Subject: [BioMart Users] Multiple UTRs for the same transcript ID > Date: Fri, 27 Jul 2012 15:04:21 +0000 > From: Lin, Kuan-Ting <[email protected]> > To: [email protected] <[email protected]> > > Dear BioMart team, > > I tried to extract the coordinates of 3' UTR of > ENST00000515585<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000515585>. > The system returns 4 records. Why are there 4 UTRs for this transcript? > > Thanks, > Woody > > > > Dataset > Homo sapiens genes (GRCh37.p7) > Filters > Ensembl Transcript ID(s) [e.g. ENST00000380152]: [ID-list specified] > Attributes > Ensembl Gene ID > Ensembl Transcript ID > 3‘ UTR Start > 3‘ UTR End > Ensembl Protein ID > Chromosome Name > Strand > Dataset > [None Selected] > > > Export all results to > File > > Compressed file (.gz) > > Compressed web file (notify by email) > > HTML > > CSV > > TSV > > XLS > > GFF > Unique results only > Email notification to > > > > View > 10 > > 20 > > 50 > > 100 > > 150 > > 200 > > All > rows as > HTML > > CSV > > TSV > > GFF > Unique results only > > Ensembl Gene ID Ensembl Transcript ID 3' UTR Start 3' UTR End Ensembl > Protein ID Chromosome Name Strand > ENSG00000108846<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000108846> > ENST00000515585<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000515585> > ENSP00000424981<http://www.ensembl.org/Homo_sapiens/Transcript/ProteinSummary?db=core;p=ENSP00000424981> > 17<http://www.ensembl.org/Homo_sapiens/mapview?chr=17> 1 > ENSG00000108846<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000108846> > ENST00000515585<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000515585> > 48735862 48735907 > ENSP00000424981<http://www.ensembl.org/Homo_sapiens/Transcript/ProteinSummary?db=core;p=ENSP00000424981> > 17<http://www.ensembl.org/Homo_sapiens/mapview?chr=17> 1 > ENSG00000108846<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000108846> > ENST00000515585<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000515585> > 48736598 48736729 > ENSP00000424981<http://www.ensembl.org/Homo_sapiens/Transcript/ProteinSummary?db=core;p=ENSP00000424981> > 17<http://www.ensembl.org/Homo_sapiens/mapview?chr=17> 1 > ENSG00000108846<http://www.ensembl.org/Homo_sapiens/Gene/Summary?db=core;g=ENSG00000108846> > ENST00000515585<http://www.ensembl.org/Homo_sapiens/Transcript/Summary?db=core;t=ENST00000515585> > 48741042 48741216 > ENSP00000424981<http://www.ensembl.org/Homo_sapiens/Transcript/ProteinSummary?db=core;p=ENSP00000424981> > 17<http://www.ensembl.org/Homo_sapiens/mapview?chr=17> 1 > > > > > > > Kuan-Ting, Lin (Woody) > Visiting Scholar, Cold Spring Harbor Laboratory, USA > Ph.D candidate, Institute of Biomedical Informatics, National YangMing > University, Taiwan, ROC > > > _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
