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7.5 years ago
joesphzhao2013
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10
I use ensemble to get the location of transcript's 3'UTR, but there are multiple location for one transcript. May one transcript have multiple 3UTR region?
Always helpful if you show an example of what you are seeing. A gene can definitely have multiple 3' UTR locations/annotations, and it's possible to have transcripts with multiple parts of the same UTR (spliced).
But without clear example it's hard to guess what phenomenom you are encountering ;)
['GeneId', 'transcriptID', '3UTR start', '3UTR end'] ['ENSG00000261657', 'ENST00000566782', '66455500', '66456619'] ['ENSG00000261657', 'ENST00000562780', '66449084', '66449105'] ['ENSG00000261657', 'ENST00000562780', '66455382', '66455748'] ['ENSG00000261657', 'ENST00000569579', '66382157', '66382229'] ['ENSG00000261657', 'ENST00000569579', '66424056', '66424100'] ['ENSG00000261657', 'ENST00000569579', '66440552', '66440621'] ['ENSG00000261657', 'ENST00000569579', '66447170', '66447234'] ['ENSG00000261657', 'ENST00000569579', '66448221', '66448294'] ['ENSG00000261657', 'ENST00000569579', '66455382', '66456619'] This is what I get from ensemble. For ENST00000569579, there are multiple 3UTR start and end position
Right, it's a spliced UTR.
It's often helpful to have a look at the gene/transcripts in a genome browser such as those from UCSC or Ensembl.
Perhaps its 3' UTR is spliced...