<div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div>Hola Omar,</div><div><br></div><div>I am so sorry that your query fell trough the cracks... <br></div><div><br></div><div>Gramene displays <a href="https://www.araport.org/data/araport11" target="_blank">AraPort11</a> gene annotations (see <a href="http://ensembl.gramene.org/Arabidopsis_thaliana/Info/Annotation/#assembly" target="_blank">http://ensembl.gramene.org/Arabidopsis_thaliana/Info/Annotation/#assembly</a>), which in the case of your gene looks almost identical to the one for TAIR10:<br></div><div><br></div><div><a href="https://www.arabidopsis.org/servlets/TairObject?id=30613&type=locus" target="_blank">https://www.arabidopsis.org/servlets/TairObject?id=30613&type=locus</a></div><div><br></div><div>TAIR would probably have the best curated genes, if you wish to contact them directly.<br></div><div><br></div><div>As far as the phylogeny, the gene is found to be among a transmembrane family of proteins known as Cornichon (see protein domains summary here: <a href="http://ensembl.gramene.org/Arabidopsis_thaliana/Transcript/ProteinSummary?db=core;g=AT1G12340;r=1:4197396-4198310;t=AT1G12340.1">http://ensembl.gramene.org/Arabidopsis_thaliana/Transcript/ProteinSummary?db=core;g=AT1G12340;r=1:4197396-4198310;t=AT1G12340.1</a>). <br></div><div><br></div><div>It closely matches grape and brachy peptides, and a predicted peptide in A. lyrata with >90% protein identity:<br></div><div><br></div><div><div><a href="http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=VIT_02s0025g05160;hom_id=68752272;r=1:4197396-4198310;t=AT1G12340.1">http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=VIT_02s0025g05160;hom_id=68752272;r=1:4197396-4198310;t=AT1G12340.1</a></div><div><a href="http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=Bo8g064800;hom_id=68608610;r=1:4197396-4198310;t=AT1G12340.1">http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=Bo8g064800;hom_id=68608610;r=1:4197396-4198310;t=AT1G12340.1</a></div></div><div><a href="http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=scaffold_101356.1;hom_id=68606680;r=1:4197396-4198310;t=AT1G12340.1">http://ensembl.gramene.org/Arabidopsis_thaliana/Gene/Compara_Ortholog/Alignment?db=core;g=AT1G12340;g1=scaffold_101356.1;hom_id=68606680;r=1:4197396-4198310;t=AT1G12340.1</a></div><div><br></div><div>Let us know if you have further questions or contact TAIR (Phoenix Bioinformatics) to suggest changes in the existing gene annotation.</div><div><br></div><div>Hope this helps! :)</div><div><br></div><div>Marcela<br></div><div><br></div><div><br></div><br><div><br></div><div><br></div><br><div><br></div><div><br></div><div class="gmail_extra"><br><div class="gmail_quote">On Wed, Aug 15, 2018 at 8:49 PM, <a href="mailto:feedback@gramene.org" target="_blank">feedback@gramene.org</a> <span dir="ltr"><<a href="mailto:feedback@gramene.org" target="_blank">feedback@gramene.org</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">URL : <a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__webmail.ibt.unam.mx_correoweb_-3F-5Ftask-3Dmail-26-5Fframed-3D1-26-5Faction-3Dpreview-26-5Fuid-3D381651-26-5Fmbox-3DINBOX-26-5Fsafe-3D1&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NQ&m=hVLPv2-I8XRCe1DdWdxWGxz_NG3gbDC9wsq9SNoQLCc&s=oGPN2Q3uC6snyqzsmAA1dV2c247n3JMp9OFLghva5Sg&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__webmail.ibt.unam.mx_correoweb_-3F-5Ftask-3Dmail-26-5Fframed-3D1-26-5Faction-3Dpreview-26-5Fuid-3D381651-26-5Fmbox-3DINBOX-26-5Fsafe-3D1&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NQ&m=hVLPv2-I8XRCe1DdWdxWGxz_NG3gbDC9wsq9SNoQLCc&s=oGPN2Q3uC6snyqzsmAA1dV2c247n3JMp9OFLghva5Sg&e=</a><br>
<br>
Subject : Gene Annotation<br>
<br>
Name : Omar Pantoja<br>
<br>
Email : <a href="mailto:omar@ibt.unam.mx" target="_blank">omar@ibt.unam.mx</a><br>
<br>
Organization: Instituto de Biotecnologia, UNAM<br>
<br>
Comments : Hi, I would like to make a comment regarding the annotation of the gene At1g12340, which I thin is incorrectly annotated. I have been working on the phylogeny of this gene family and according to my analyses, the region assigned to that gene does not code for a protein. I wonder if you could check this. Thank you<br>
<br>
<a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__www.warelab.org_bugs_view.php-3Fid-3D5753&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NQ&m=hVLPv2-I8XRCe1DdWdxWGxz_NG3gbDC9wsq9SNoQLCc&s=uE-1FjnX1af9wqRdY8FFjZFsmpQci4IimeNKuJt-WsE&e=" rel="noreferrer" target="_blank">https://urldefense.proofpoint.com/v2/url?u=http-3A__www.warelab.org_bugs_view.php-3Fid-3D5753&d=DwIBaQ&c=mkpgQs82XaCKIwNV8b32dmVOmERqJe4bBOtF0CetP9Y&r=_Zc33CcBZfVwbQ1K4e-3NQ&m=hVLPv2-I8XRCe1DdWdxWGxz_NG3gbDC9wsq9SNoQLCc&s=uE-1FjnX1af9wqRdY8FFjZFsmpQci4IimeNKuJt-WsE&e=</a><br>
</blockquote></div><br><br clear="all"><br>-- <br><div class="gmail-m_8347556116122944195gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><br>Marcela Karey Tello-Ruiz, PhD</font> <font size="1"><br>Gramene Project Manager </font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1"><span>and Education, Outreach & Training Lead</span><br>Cold Spring Harbor Laboratory<br>One Bungtown Road, Williams #5<br>Cold Spring Harbor, NY 11724<br></font></span><span style="border-collapse:collapse;color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px"><font size="1">Phone: <span style="background-color:rgb(255,255,255)">516-<span>367</span>-<span><span style="background-image:initial;color:rgb(34,34,34)"><span>6977</span></span></span></span><br>
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