Gb_15991 details <div class="sidebar-sequence" id="sidebar"> <p>Jump to ...</p> <nav id="navbar-side"> <ul class="nav nav-pills nav-stacked" data-spy="affix"> <li><a href="#expression_profile">Profile</a></li> <li><a href="#coexpression_networks">Networks</a></li> <li><a href="#expression_conservation">ECC</a></li> <li><a href="#annotation">Annotation</a></li> <li><a href="#links">Links</a></li> </ul> </nav> </div> <ol class="breadcrumb"> <li><a href="/">Home</a></li> <li><a href="/species/">Species</a></li> <li><a href="/species/view/11"><em>Solanum lycopersicum</em></a></li> <li>Sequence</li> <li class="active"><strong>Solyc01g105090.3.1</strong></li> </ol> <h1><strong>Solyc01g105090.3.1</strong></h1> <br> <p><strong>Description : </strong> Uncharacterized CRM domain-containing protein At3g25440, chloroplastic OS=Arabidopsis thaliana (sp|q67xl4|y3544_arath : 154.0)</p> <br> <div> <p><strong><abbr title="Click to show help" href="/help/gene_family" data-target="#helpModal">Gene families</abbr> : </strong><a href="/family/view/1382">OG0001381</a> (Archaeplastida) Phylogenetic Tree(s): <a href="/tree/view/41757">OG0001381_tree</a> ,<br> <a href="/family/view/132541">OG_05_0000914</a> (LandPlants) Phylogenetic Tree(s): <a href="/tree/view/81121">OG_05_0000914_tree</a> ,<br> <a href="/family/view/251457">OG_06_0003015</a> (SeedPlants) Phylogenetic Tree(s): <a href="/tree/view/102861">OG_06_0003015_tree</a> </p> <p><strong>Sequence :</strong> <a href="/sequence/modal/coding/349393" data-target="#profileModal">coding</a> (<a href="/sequence/fasta/coding/349393">download</a>), <a href="/sequence/modal/protein/349393" data-target="#profileModal">protein</a> (<a href="/sequence/fasta/protein/349393">download</a>) </p> </div> <h3 class="banner-blue" id="expression_profile">Expression Profile</h3> <div class="pull-right"> <a href="#" class="btn btn-default" id="enable_pan" data-toggle="tooltip" title="Toggle Pan"><i class="fa fa-arrows" aria-hidden="true"></i></a> <a href="#" class="btn btn-default" id="enable_zoom" data-toggle="tooltip" title="Toggle zoom"><i class="fa fa-search" aria-hidden="true"></i></a> </div> <div style="height:550px; max-height:550px; margin-top:30px"> <canvas id="expression-profile" class="center-block" height="550"/> </div> <br> <div class="pull-right"> <a href="/profile/download/plot/349460" class="btn btn-primary" download="plot_349460.txt">Download</a> </div> <p><strong>Note:</strong>Only the main profile, including all conditions, is shown. Additional statistics and tissue specific profiles are available <a href="/profile/view/349460">here</a>.</p> <br> <div> <h3 class="banner-blue" id="coexpression_networks">Co-expression Networks</h3> <div class="table-responsive"> <table class="table table-striped table-separated" id="coexpression_table"> <thead> <tr> <th data-sort="string-ins"><span class="sort-icon"></span>Type</th> <th data-sort="string-ins"><span class="sort-icon"></span>Description</th> <th>Actions</th> </tr> </thead> <tbody> <tr> <td><abbr title="Click to show help" href="/help/neighborhood" data-target="#helpModal">Neighborhood</abbr></td> <td>HRR: <strong>Solyc01g105090.3.1</strong></td> <td><a href="/network/download/neighbors/340335" data-toggle="tooltip" data-placement="top" title="Download direct neighbors" download="neighbors_340335.txt"><i class="fa fa-list"></i></span> <a href="/network/graph/340335" data-toggle="tooltip" data-placement="top" title="View neighborhood as graph"><i class="fa fa-sitemap"></i></a> <span class="text-muted" data-toggle="tooltip" data-placement="top" title="Disabled for neighborhoods"><i class="fa fa-area-chart"></i></span> <span class="text-muted" data-toggle="tooltip" data-placement="top" title="Disabled for neighborhoods"><i class="fa fa-table"></i></span></td> </tr> <tr> <td><abbr title="Click to show help" href="/help/cluster" data-target="#helpModal">Cluster</abbr></td> <td>HCCA: <strong><a href="/cluster/view/6922" class="qtip_tooltip" qtip_href="/cluster/tooltip/6922">Cluster_229</a></strong></td> <td><a href="/cluster/view/6922" data-toggle="tooltip" data-placement="top" title="View cluster as table"><i class="fa fa-list"></i></a> <a href="/cluster/graph/6922" data-toggle="tooltip" data-placement="top" title="View cluster as graph"><i class="fa fa-sitemap"></i></a> <a href="/profile_comparison/cluster/6922" data-toggle="tooltip" data-placement="top" title="Compare profiles in this cluster"><i class="fa fa-area-chart"></i></a> <a href="/heatmap/cluster/6922" data-toggle="tooltip" data-placement="top" title="Heatmap of profiles in this cluster"><i class="fa fa-table"></i></a></td> </tr> </tbody> </table> </div> </div> <br> <h3 class="banner-blue" id="expression_conservation">Expression Context Conservation (<abbr title="Click to show help" href="/help/ecc" data-target="#helpModal">ECC</abbr>)</h3> <div class="table-responsive"> <table class="table table-striped table-separated" id="ecc_hits_table"> <thead> <tr> <th data-sort="string-ins"><span class="sort-icon"></span>Target</th> <th data-sort="string-ins"><span class="sort-icon"></span>Alias</th> <th data-sort="string-ins"><span class="sort-icon"></span>Description</th> <th data-sort="float"><span class="sort-icon"></span><abbr title="Click to show help" href="/help/ecc" data-target="#helpModal">ECC</abbr> score</th> <th data-sort="string-ins"><span class="sort-icon"></span>Gene Family Method</th> <th>Actions</th> </tr> </thead> <tbody> <tr> <td><a href="/sequence/view/304159" class="qtip_tooltip qtip_dynamic_tooltip" qtip_href="/sequence/tooltip/304159">LOC_Os06g20030.1</a></td> <td><span class="text-muted">No alias</span></td> <td>Uncharacterized CRM domain-containing protein At3g25440,...</td> <td>0.04</td> <td>Archaeplastida</td> <td><a href="/ecc/graph_pair/3027114" data-toggle="tooltip" data-placement="top" title="View ECC pair as graph"><i class="fa fa-eye"></i></a> <a href="/ecc/graph/349393/11/1" data-toggle="tooltip" data-placement="top" title="View ECC as graph"><i class="fa fa-sitemap"></i></a></td> </tr> </tbody> </table> </div> <br> <h3 class="banner-blue" id="annotation">Functional Annotation</h3> <div class="panel with-nav-tabs panel-default"> <div class="panel-heading"> <ul class="nav nav-tabs"> <li class="active"><a href="#tab1default" data-toggle="tab">GO</a></li> <li><a href="#tab2default" data-toggle="tab">Predicted GO</a></li> <li><a href="#tab3default" data-toggle="tab">InterPro</a></li> </ul> </div> <div> <div class="tab-content"> <div class="tab-pane fade in active" id="tab1default"> <div class="table-responsive"> <table class="table table-striped table-fixed" id="go_table"> <thead> <tr> <th class="col-xs-1" data-sort="string-ins"><span class="sort-icon"></span>Type</th> <th class="col-xs-2" data-sort="string-ins"><span class="sort-icon"></span><abbr title="Click to show help" href="/help/go" data-target="#helpModal">GO</abbr> Term</th> <th class="col-xs-6" data-sort="string-ins"><span class="sort-icon"></span>Name</th> <th class="col-xs-1" data-sort="string-ins"><span class="sort-icon"></span>Evidence</th> <th class="col-xs-2" data-sort="string-ins"><span class="sort-icon"></span>Source</th> </tr> </thead> <tbody> <tr class="parent_term" style="display: none" style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/2739" data-toggle="tooltip" data-placement="top" title=""A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt]">GO:0003674</a></td> <td class="col-xs-6">molecular_function</td> <td class="col-xs-1">None</td> <td class="col-xs-2">Extended</td> </tr> <tr class="parent_term" style="display: none" style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/2741" data-toggle="tooltip" data-placement="top" title=""Interacting selectively and non-covalently with any nucleic acid." [GOC:jl]">GO:0003676</a></td> <td class="col-xs-6">nucleic acid binding</td> <td class="col-xs-1">None</td> <td class="col-xs-2">Extended</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/2782" data-toggle="tooltip" data-placement="top" title=""Interacting selectively and non-covalently with an RNA molecule or a portion thereof." [GOC:jl, GOC:mah]">GO:0003723</a></td> <td class="col-xs-6">RNA binding</td> <td class="col-xs-1">IEA</td> <td class="col-xs-2">Interproscan</td> </tr> <tr class="parent_term" style="display: none" style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/4226" data-toggle="tooltip" data-placement="top" title=""The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732]">GO:0005488</a></td> <td class="col-xs-6">binding</td> <td class="col-xs-1">None</td> <td class="col-xs-2">Extended</td> </tr> <tr class="parent_term" style="display: none" style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/36012" data-toggle="tooltip" data-placement="top" title=""Interacting selectively and non-covalently with an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure." [CHEBI:33832, GOC:sjw, PMID:7583672]">GO:0097159</a></td> <td class="col-xs-6">organic cyclic compound binding</td> <td class="col-xs-1">None</td> <td class="col-xs-2">Extended</td> </tr> <tr class="parent_term" style="display: none" style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/40582" data-toggle="tooltip" data-placement="top" title=""Interacting selectively and non-covalently with heterocyclic compound." [GOC:TermGenie]">GO:1901363</a></td> <td class="col-xs-6">heterocyclic compound binding</td> <td class="col-xs-1">None</td> <td class="col-xs-2">Extended</td> </tr> </tbody> </table> </div> <div class="panel-body"> <a href="#" id="go_toggle">Toggle parental</a> </div> </div> <div class="tab-pane fade" id="tab2default"> <div class="table-responsive"> <table class="table table-striped table-fixed" id="predicted_go_table"> <thead> <tr> <th class="col-xs-1" data-sort="string-ins"><span class="sort-icon"></span>Type</th> <th class="col-xs-2" data-sort="string-ins"><span class="sort-icon"></span><abbr title="Click to show help" href="/help/go" data-target="#helpModal">GO</abbr> Term</th> <th class="col-xs-6" data-sort="string-ins"><span class="sort-icon"></span>Name</th> <th class="col-xs-1" data-sort="string-ins"><span class="sort-icon"></span>Evidence</th> <th class="col-xs-2" data-sort="string-ins"><span class="sort-icon"></span>Source</th> </tr> </thead> <tbody> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/2985" data-toggle="tooltip" data-placement="top" title=""Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time." [EC:2.7.7.48, GOC:mah, GOC:pf]">GO:0003968</a></td> <td class="col-xs-6">RNA-directed 5'-3' RNA polymerase activity</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/3470" data-toggle="tooltip" data-placement="top" title=""Catalysis of the hydrolysis of ester linkages within nucleic acids." [ISBN:0198547684]">GO:0004518</a></td> <td class="col-xs-6">nuclease activity</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/3478" data-toggle="tooltip" data-placement="top" title=""Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end." [GOC:mah, ISBN:0198547684]">GO:0004527</a></td> <td class="col-xs-6">exonuclease activity</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/3642" data-toggle="tooltip" data-placement="top" title=""Catalysis of the reaction: a phosphoprotein + H2O = a protein + phosphate. Together with protein kinases, these enzymes control the state of phosphorylation of cell proteins and thereby provide an important mechanism for regulating cellular activity." [EC:3.1.3.16, ISBN:0198547684]">GO:0004721</a></td> <td class="col-xs-6">phosphoprotein phosphatase activity</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/4244" data-toggle="tooltip" data-placement="top" title=""Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules)." [GOC:go_curators]">GO:0005515</a></td> <td class="col-xs-6">protein binding</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/5508" data-toggle="tooltip" data-placement="top" title=""The cellular catabolic process in which cells digest parts of their own cytoplasm; allows for both recycling of macromolecular constituents under conditions of cellular stress and remodeling the intracellular structure for cell differentiation." [GOC:autophagy, ISBN:0198547684, PMID:11099404, PMID:9412464]">GO:0006914</a></td> <td class="col-xs-6">autophagy</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/6275" data-toggle="tooltip" data-placement="top" title=""Catalysis of the reactions: protein serine + H2O = protein serine + phosphate; protein threonine phosphate + H2O = protein threonine + phosphate; and protein tyrosine phosphate + H2O = protein tyrosine + phosphate." [GOC:mah]">GO:0008138</a></td> <td class="col-xs-6">protein tyrosine/serine/threonine phosphatase activity</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/10132" data-toggle="tooltip" data-placement="top" title=""The chemical reactions and pathways involving snRNA, small nuclear RNA, any of various low-molecular-mass RNA molecules found in the eukaryotic nucleus as components of the small nuclear ribonucleoprotein." [ISBN:0198506732]">GO:0016073</a></td> <td class="col-xs-6">snRNA metabolic process</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/10230" data-toggle="tooltip" data-placement="top" title=""Any process involved in the conversion of a primary small nuclear RNA (snRNA) transcript into a mature snRNA molecule." [GOC:jl]">GO:0016180</a></td> <td class="col-xs-6">snRNA processing</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/10334" data-toggle="tooltip" data-placement="top" title=""The process of removing one or more phosphoric (ester or anhydride) residues from a molecule." [ISBN:0198506732]">GO:0016311</a></td> <td class="col-xs-6">dephosphorylation</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">MF</td> <td class="col-xs-2"><a href="/go/view/10725" data-toggle="tooltip" data-placement="top" title=""Catalysis of the hydrolysis of any ester bond." [GOC:jl]">GO:0016788</a></td> <td class="col-xs-6">hydrolase activity, acting on ester bonds</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/14672" data-toggle="tooltip" data-placement="top" title=""Any process involved in forming the mature 3' end of an RNA molecule." [GOC:mah]">GO:0031123</a></td> <td class="col-xs-6">RNA 3'-end processing</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/17891" data-toggle="tooltip" data-placement="top" title=""Any process involved in forming the mature 3' end of an snRNA molecule." [GOC:mah]">GO:0034472</a></td> <td class="col-xs-6">snRNA 3'-end processing</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/17896" data-toggle="tooltip" data-placement="top" title=""Any process involved in forming the mature 3' end of a U6 snRNA molecule." [GOC:mah]">GO:0034477</a></td> <td class="col-xs-6">U6 snRNA 3'-end processing</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/21842" data-toggle="tooltip" data-placement="top" title=""Any process involved in forming the mature 3' end of a non-coding RNA molecule." [GOC:jl]">GO:0043628</a></td> <td class="col-xs-6">ncRNA 3'-end processing</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> <tr style="clear:both;"> <td class="col-xs-1">BP</td> <td class="col-xs-2"><a href="/go/view/31600" data-toggle="tooltip" data-placement="top" title=""A cellular process involving delivery of a portion of the cytoplasm to lysosomes or to the plant or fungal vacuole that does not involve direct transport through the endocytic or vacuolar protein sorting (Vps) pathways. This process typically leads to degradation of the cargo; however, it can also be used to deliver resident proteins, such as in the cytoplasm-to-vacuole targeting (Cvt) pathway." [PMID:21997368, PMID:22966490, PMID:28596378]">GO:0061919</a></td> <td class="col-xs-6">process utilizing autophagic mechanism</td> <td class="col-xs-1">IEP</td> <td class="col-xs-2">Neighborhood</td> </tr> </tbody> </table> </div> </div> <div class="tab-pane fade" id="tab3default"> <div class="table-responsive"> <table class="table table-striped table-fixed" id="interpro_table"> <thead> <tr> <th class="col-xs-3" data-sort="string-ins"><span class="sort-icon"></span><abbr title="Click to show help" href="/help/interpro_domain" data-target="#helpModal">InterPro domains</abbr></th> <th class="col-xs-5" data-sort="string-ins"><span class="sort-icon"></span>Description</th> <th class="col-xs-2" data-sort="int"><span class="sort-icon"></span>Start</th> <th class="col-xs-2" data-sort="int"><span class="sort-icon"></span>Stop</th> </tr> </thead> <tbody> <tr> <td class="col-xs-3"><a href="/interpro/view/1568">IPR001890</a></td> <td class="col-xs-5">RNA-binding_CRM</td> <td class="col-xs-2">230</td> <td class="col-xs-2">314</td> </tr> </tbody> </table> </div> </div> </div> </div> </div> <div class="row"> <div class="col-lg-12 col-md-12 col-sm-12"> <div class="panel panel-default"> <div class="panel-heading" id="links">External Links</div> <div class="table-responsive"> <table class="table table-striped table-separated"> <tbody> <tr> <td><em>No external refs found!</em></td> </td> </tr> </tbody> </table> </div> </div> </div> </div> <div class="modal" id="profileModal" tabindex="-1" role="dialog" aria-labelledby="profileModalLabel"> <div class="modal-dialog" role="document" style="width:1000px;height:800px;"> <div class="modal-content"> </div> </div> </div> </div> </div> </div> <footer class="footer" id="footer"> <div class="container"> <div class="row"> <div class="col-xs-2"><strong class="text-muted"><a href="/features" class="text-muted">CoNekT</a></strong></div> <div class="col-xs-2"><a href="/about" class="text-muted">About</a></div> <div class="col-xs-2"><a href="/contact" class="text-muted">Contact</a></div> <div class="col-xs-2"><a href="/disclaimer" class="text-muted">Disclaimer</a></div> <div class="col-xs-2"><a href="/privacy" class="text-muted">Privacy policy</a></div> </div> </div> </footer> <div class="modal" id="helpModal" tabindex="-1" role="dialog" aria-labelledby="helpModalLabel"> <div class="modal-dialog" role="document" style="width:1000px;height:800px;"> <div class="modal-content"> </div> </div> </div> <div class="modal" id="loaderModal" tabindex="-1" role="dialog" aria-labelledby="loaderModalLabel"> <div class="modal-dialog" role="document" style="width:1000px;height:800px;"> <div class="modal-content"> <div class="modal-body"> <div id="leafy_loader"></div> <p class="text-center text-muted" id="leafy_loader_text">Loading ... please wait ... </p> <p class="text-center" id="leafy_loader_close_btn" style="display:none"><button type="button" class="btn btn-primary" data-dismiss="modal" style>Close</button></p> </div> </div> </div> </div> <script src="/static/js/jquery.min.js"></script> <script src="/static/js/bootstrap.min.js"></script> <script src="/static/js/stupidtable.min.js"></script> <script src="/static/js/TweenMax.min.js"></script> <script src="/static/js/jquery.qtip.min.js"></script> <script src="/static/js/planet_loader.js"></script> <script> function init_qtip() { $('.qtip_tooltip').each(function() { $(this).qtip({ content: { text: function(event, api) { $.ajax({ url: api.elements.target.attr('qtip_href') }) .then(function(content) { // Set the tooltip content upon successful retrieval api.set('content.text', content); 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