[BioC] is there a 1:1 correspondence between ENST and 3'UTR sequence ?

[michael watson (IAH-C)]

Hi Maura

Of the three IDs you list, only ensembl_transcript_id is a unique identifier for transcripts.  Not all transcripts have an annotated 3' UTR

Mick
________________________________________
From: bioconductor-bounces at stat.math.ethz.ch [bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Steffen Durinck [sdurinck at lbl.gov]
Sent: 14 June 2010 23:11
To: mauede at alice.it
Cc: Bioconductor List
Subject: Re: [BioC] is there a 1:1 correspondence between ENST and 3'UTR        sequence ?

Hi Maura,

I would expect to get just one 3UTR sequence for each transcript ID.  Check
in you script if all transcript IDs you're looking at are unique.  Maybe a
transcript ID is assigned to two HGNC symbols...which would result in
multiple results for one transcript ID, it should output the same sequence
though.

Cheers,
Steffen

On Mon, Jun 14, 2010 at 3:04 PM, <mauede at alice.it> wrote:

> It looks like there may be more than a 3UTR sequence for the same
> transcript that we identify through three keywords: hgnc_symbol,
> ensembl_gene_id, ensembl_transcript_id.
> It maybe caused by a bug in my script which I am testing.... or is such a
> weird situation real ?
> Thank you,
> Maura
>
>
>
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