<html><head><meta http-equiv="Content-Type" content="text/html charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hello, Could I have some help on this?<div>Thanks</div><div>Nathalie</div><div><br><div><div>On 24 Jul 2014, at 15:31, Nathalie Conte <<a href="mailto:nconte@ebi.ac.uk">nconte@ebi.ac.uk</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><meta http-equiv="Content-Type" content="text/html charset=us-ascii"><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">
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<!--StartFragment--><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4">Hi Dev team,</font></span></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4">In Ensembl, there is only one protein coding transcript for
Fign gene: ENSMUST00000131615<b><o:p></o:p></b></font></span></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4"><a href="http://www.ensembl.org/Mus_musculus/Transcript/Summary?db=core;g=ENSMUSG00000075324;r=2:63971507-64098038;t=ENSMUST00000131615">http://www.ensembl.org/Mus_musculus/Transcript/Summary?db=core;g=ENSMUSG00000075324;r=2:63971507-64098038;t=ENSMUST00000131615</a><o:p></o:p></font></span></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4">The ATG is here in exon-2.<o:p></o:p></font></span></p><p class="MsoNormal"><font size="4"><span lang="EN-US" style="font-family: Calibri; "> </span><span style="font-family: Calibri; ">However, historically there has been a second protein coding </span></font><span lang="EN-US" style="font-size: large; font-family: Calibri; ">annotated in Ensembl,</span><span lang="EN-US" style="font-size: large; font-family: Calibri; "> </span><span lang="EN-US" style="font-size: large; font-family: Calibri; ">ENSMUST00000166144, which has been removed at some point. For this
second transcript the ATG starts in the last exon (in frame and 33 bp
downstream of the ATG in exon-2)</span></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4"><a href="http://may2012.archive.ensembl.org/Mus_musculus/Transcript/Summary?db=core;g=ENSMUSG00000075324;r=2:63809564-63936095;t=ENSMUST00000166144">http://may2012.archive.ensembl.org/Mus_musculus/Transcript/Summary?db=core;g=ENSMUSG00000075324;r=2:63809564-63936095;t=ENSMUST00000166144</a></font></span></p><p class="MsoNormal"><font size="4"><span lang="EN-US" style="font-family: Calibri; ">There seems to have biological evidence that this second
transcript exist and i</span><span lang="EN-US" style="font-family: Calibri; ">t would be therefore very useful to understand as
to why this transcript has been removed and is not considered protein coding by
Ensembl any more.<o:p></o:p></span></font></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4">Thanks for any info,<o:p></o:p></font></span></p><p class="MsoNormal"><span lang="EN-US" style="font-family: Calibri; "><font size="4">Nathalie</font><font size="5"><o:p></o:p></font></span></p>
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