with_OMAT_gene
<html><body><title>AT4G17615.1</title>(↑ Click "Links", if this line appears at the beginning.)<br><H1>Other supporting information</H1><table><tr><td colspan="2" align="left"><b>Gene Model</b><br></td></tr><tr><td NOWRAP width="75"></td><td NOWRAP><img src="/dbfiles/SciNetS_ria227i/cria227s2i/cria227s2ria227u421761501000i/AT4G17615.1.gene_models.png" width="717"><br></td></tr><tr><td colspan=2 align="left"><b>Correlation Plot</b><br></td></tr><tr><td NOWRAP colspan="2" align="left"><img src="/dbfiles/SciNetS_ria227i/cria227s2i/cria227s2ria227u421761501000i/AT4G17615.1.CorrPlot.jpg" width="800"><br><br></td></tr></table><hr><b>Expression profile (Values are plotted in Log(2) values.)</b><br><img src="/dbfiles/SciNetS_ria227i/cria227s2i/cria227s2ria227u421761501000i/AT4G17615.1.F0.Expression.png"><br><hr><b>Genes with related expresssion profiles.</b><br><table border=1><tr><th colspan=7 align="left">Positively Correlated Genes</th></tr><tr><th>Gens</th><th>PCC</th><th>Definition</th><th>Overlap gene</th><th>Definition</th><th>Overlap gene(antisense)</th><th>Definition</th></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u126276601000i">AT1G62766.1</a></td><td>0.763685</td><td>transposable element gene</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u223358001000i">AT2G33580.1</a></td><td>0.727851</td><td>protein kinase family protein / peptidoglycan-binding LysM domain-containing protein</td><td>OMAT2P107330</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u124435001000i">AT1G44350.1</a></td><td>0.724512</td><td>ILL6</td><td>OMAT1P111220,OMAT1P111230</td><td>[OMAT1P111220]-, [OMAT1P111230]-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u526257001000i">AT5G62570.1</a></td><td>0.720235</td><td>calmodulin-binding protein</td><td>OMAT5P019080</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u121742001000i">AT1G17420.1</a></td><td>0.708984</td><td>LOX3</td><td>OMAT1P006430</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u522459002000i">AT5G24590.2</a></td><td>0.70459</td><td>TIP (TCV-INTERACTING PROTEIN)</td><td>OMAT5P107340</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u422965401000i">AT4G29654.1</a></td><td>0.700494</td><td>FUNCTIONS IN: molecular_function unknown</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u221002001000i">AT2G10020.1</a></td><td>0.693806</td><td>unknown protein</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u120661001000i">AT1G06610.1</a></td><td>0.690524</td><td>pre-tRNA</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u124376601000i">AT1G43766.1</a></td><td>0.684486</td><td>pseudogene, putative phosphofructokinase beta subunit, similar to pyrophosphate-dependent phosphofructokinase beta subunit GB:AAC67586 GI:3790100 from (Citrus x paradisi)</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><th colspan=7 align="left">Negatively Correlated Genes</th></tr><tr><th>Gens</th><th>PCC</th><th>Definition</th><th>Overlap gene</th><th>Definition</th><th>Overlap gene(antisense)</th><th>Definition</th></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u221706401000i">AT2G17064.1</a></td><td>-0.738186</td><td>Pseudogene of AT2G17080</td><td>-</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u223175001000i">AT2G31750.1</a></td><td>-0.713532</td><td>UGT74D1 (UDP-glucosyl transferase 74D1)</td><td>OMAT2P007590</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u122621001000i">AT1G26210.1</a></td><td>-0.712275</td><td>unknown protein</td><td>OMAT1P009310</td><td>-</td><td>OMAT1P108180</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u525350001000i">AT5G53500.1</a></td><td>-0.705645</td><td>WD-40 repeat family protein</td><td>OMAT5P113850</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u325606001000i">AT3G56060.1</a></td><td>-0.703824</td><td>glucose-methanol-choline (GMC) oxidoreductase family protein</td><td>OMAT3P113630,OMAT3P113640</td><td>[OMAT3P113630]-, [OMAT3P113640]-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u125533001000i">AT1G55330.1</a></td><td>-0.698998</td><td>AGP21</td><td>OMAT1P113710</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u126464001000i">AT1G64640.1</a></td><td>-0.683033</td><td>plastocyanin-like domain-containing protein</td><td>OMAT1P115890</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u224744001000i">AT2G47440.1</a></td><td>-0.678877</td><td>DNAJ heat shock N-terminal domain-containing protein</td><td>OMAT2P013640</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u222668001000i">AT2G26680.1</a></td><td>-0.678804</td><td>FUNCTIONS IN: molecular_function unknown</td><td>OMAT2P105080</td><td>-</td><td>-</td><td>-</td></tr><tr><td><a href="/db/SciNetS_ria227i/cria227s2ria00227u121694001000i">AT1G16940.1</a></td><td>-0.676967</td><td>F-box family protein</td><td>-</td><td>-</td><td>-</td><td>-</td></tr></table><br><a href="/dbfiles/SciNetS_ria227i/cria227s2i/cria227s2ria227u421761501000i/AT4G17615.1-correlation.txt">Get whole results</a><br><br> <HR><b>Over-Representation Analysis Result</b><br><br><table border="1"><tr bgcolor=#FF69B4><td></td><td><i>p</i>-value</td><td> <= 1.00e-06</td><td>:20 terms with high significance</td></a></tr><tr bgcolor=#FFFACD><td>1.00e-06 < </td><td><i>p</i>-value</td><td> <= 8.76e-06</td><td> :With considering multiple testing correction;<br><i>p</i> <= 1.00e-02 / 1142</td></tr><tr bgcolor=#FFFFFF><td>8.76e-06 < </td><td><i>p</i>-value</td><td> <= 1.00e-02</td><td></td></tr></table><br><table border="1"><tr><th>Type of term (*1)</th><th>Depth of the term in ontology tree</th><th>ID/Term</th><th>Description</th><th>Number of genes</th><th>Over-Representative rate (*2)</th><th><i>p</i>-value (*3)</th><th>PosMed <i>p</i>-value (*4)<br> (Link to PosMed)</th><th>Found on gene annotation</th></tr><tr bgcolor=#FFFFFF><td>B</td><td>4</td><td>GO:0010033</td><td>response to organic substance</td><td>19/200</td><td>2.84</td><td>1.41e-05</td><td>-</td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>4</td><td>GO:0006952</td><td>defense response</td><td>15/200</td><td>3.29</td><td>1.55e-05</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0006950</td><td>response to stress</td><td>28/200</td><td>2.26</td><td>1.79e-05</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=response%20stress">2.13E-16</a></td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0009607</td><td>response to biotic stimulus</td><td>13/200</td><td>3.60</td><td>1.86e-05</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0051707</td><td>response to other organism</td><td>11/200</td><td>3.28</td><td>1.54e-04</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0051716</td><td>cellular response to stimulus</td><td>13/200</td><td>2.94</td><td>1.59e-04</td><td>-</td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0023033</td><td>signaling pathway</td><td>11/200</td><td>3.25</td><td>1.67e-04</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=signaling%20pathway">2.02E-16</a></td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>5</td><td>GO:0051252</td><td>regulation of RNA metabolic process</td><td>13/200</td><td>2.49</td><td>8.39e-04</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0042221</td><td>response to chemical stimulus</td><td>22/200</td><td>1.93</td><td>1.11e-03</td><td>-</td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>5</td><td>GO:0032774</td><td>RNA biosynthetic process</td><td>13/200</td><td>2.37</td><td>1.31e-03</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>3</td><td>GO:0009719</td><td>response to endogenous stimulus</td><td>12/200</td><td>2.33</td><td>2.17e-03</td><td>-</td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>5</td><td>GO:0006350</td><td>transcription</td><td>18/200</td><td>1.76</td><td>7.01e-03</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=transcription">1.02E-15</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>B</td><td>5</td><td>GO:0006464</td><td>protein modification process</td><td>18/200</td><td>1.73</td><td>8.56e-03</td><td>-</td><td>yes</td></tr><tr bgcolor="#555555" height="10"><td colspan="9"></td></tr><tr bgcolor=#FFFFFF><td>M</td><td>3</td><td>GO:0003700</td><td>transcription factor activity</td><td>24/200</td><td>2.38</td><td>2.85e-05</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>M</td><td>4</td><td>GO:0003677</td><td>DNA binding</td><td>29/200</td><td>2.09</td><td>5.27e-05</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=binding">0</a></td><td>no</td></tr><tr bgcolor="#555555" height="10"><td colspan="9"></td></tr><tr bgcolor=#FFFACD><td>KW</td><td>0</td><td>transcriptional</td><td>-</td><td>11/200</td><td>4.56</td><td>6.41e-06</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=transcriptional">3.73E-16</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>responsive</td><td>-</td><td>11/200</td><td>3.67</td><td>5.38e-05</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=responsive">1.97E-16</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>transcription</td><td>-</td><td>28/200</td><td>1.93</td><td>2.86e-04</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=transcription">1.02E-15</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>related</td><td>-</td><td>45/200</td><td>1.60</td><td>4.29e-04</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=related">1.73E-21</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>subfamily</td><td>-</td><td>10/200</td><td>3.10</td><td>4.35e-04</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=subfamily">4.06E-17</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>member</td><td>-</td><td>22/200</td><td>2.01</td><td>6.51e-04</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=member">2.05E-16</a></td><td>yes</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>response</td><td>-</td><td>30/200</td><td>1.67</td><td>1.90e-03</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=response">3.49E-15</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>factor</td><td>-</td><td>28/200</td><td>1.60</td><td>4.90e-03</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=factor">2.79E-15</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>nucleus</td><td>-</td><td>22/200</td><td>1.71</td><td>5.19e-03</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=nucleus">3.64E-21</a></td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>ipr011009</td><td>-</td><td>13/200</td><td>2.01</td><td>5.76e-03</td><td>-</td><td>no</td></tr><tr bgcolor=#FFFFFF><td>KW</td><td>0</td><td>dependent</td><td>-</td><td>22/200</td><td>1.64</td><td>8.03e-03</td><td><a href="http://omicspace.riken.jp/PosMed/search?actionType=searchexec&objectSet=gene&species=At&condition=GeneIds&associationDirectMode=2&associationRelationMode=2&geneIds1=AT4G17615&keyword=dependent">2.39E-15</a></td><td>no</td></tr></table><table><tr><td valign=top>(*1)</td><td>[B]:Biological process(Gene ontology), [M]:Molecular function(Gene ontology), [KW]:words found in gene description.</td></tr><tr><td valign=top>(*2)</td><td>([# of genes with the term] / [# of sampling (200)]) / ([# of genes with the term among whole genes] / [# of whole genes]) </td></tr><tr><td valign=top>(*3)</td><td>P-values were calculated on hypergeometric distribution in which we found <i>n</i> genes with a annotation term during 200 highly correlated genes, while we had <i>N</i> genes with the term in the whole genes.</td></tr><tr><td valign=top>(*4)</td><td><a href="http://omicspace.riken.jp/PosMed-plus/">PosMed</a> is a system which serve a p-values showing a relationship between the gene and the annotation term based on literature information and Gene-Gene interaction suchas co-expression or protein-protein interactions.</td></tr></table><hr><a href="/db/SciNetS_ria227i/cria227s904i">Top Page</a></body></html>
0.65073999999999998511
AT4G17615.1