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<!DOCTYPE HTML PUBLIC "-//W3C//Dtd HTML 4.01 Transitional//EN"> <html> <head> <!-- Google tag (gtag.js) --> <script async src="https://www.googletagmanager.com/gtag/js?id=G-9H47X4K6P6"></script> <script> window.dataLayer = window.dataLayer || []; function gtag(){dataLayer.push(arguments);} gtag('js', new Date()); gtag('config', 'G-9H47X4K6P6'); </script> <link href="/css/style.css" type="text/css" rel="stylesheet"> <!--Include additional css, etc--> </head> <div id="header"> <body bgcolor="#ffffff" leftmargin=0 topmargin=0 marginwidth="0" marginheight="0" > <!-- Nav Bar --> <table width="915" cellpadding=0 cellspacing=0> <tr><td colspan=8 > <table cellpadding=2 cellspacing=0 width="100%" border=0> <TR> <td rowspan=2 colspan=8 valign=middle align="left"> <DIV style=" padding: 5px 5px 5px 5px;vertical-align: middle;"> <DIV style="float:left; display:table-cell; vertical-align: middle; text-align: center; padding: 10px 20px 5px 5px;"> <a href="/" target="_top"><img src="/images/logos/Panther_logo.jpg" ></a> </DIV> <p style="overflow:hidden;font-size:14px">The mission of the PANTHER knowledgebase is to support biomedical and other research by providing<BR> <b>comprehensive information about the evolution of protein-coding gene families</b>, particularly<BR> protein phylogeny, function and genetic variation impacting that function. <a href="/about.jsp">Learn more</a></p> </DIV> </td> </TR> </table> </td> </tr> <TR> <TD align = "left"><div><b>PANTHER19.0 Released. <a href="/news/news20240620.jsp"> Click</a> for more details.</b></div></TD> </TR> <TR><TD> </TD></TR> <TR> <TD colspan=8 bgcolor="#F0F2F5" valign=middle align="left" > <form name="quicksearch" method=GET onSubmit="javascript:submitQuickSearch();"> <input type="hidden" name="searchType" value="basic"> <input type="hidden" name="fieldName" value="all"> <input type="hidden" name="organism" value="all"> <table align="left" border="0" cellspacing="0" cellpadding="0" height="100%"> <tr> <td 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About </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/data/" target="_top"> Data Version </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/tools/index.jsp" target="_top"> Tools </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/services/index.jsp" target="_top"> API/Services </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/publications.jsp" target="_top"> Publications </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/workspace/" target="_top"> Workspace </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/downloads/index.jsp" target="_top"> Downloads </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=headerTabs><a href="/help/PANTHERhelp.jsp" target="_top"> FAQ/Help/Tutorial </A> </TD> </TR> </TABLE> </TD> <TD colspan=3 bgcolor="#748CAD" height=25 align="right"> <TABLE cellpadding=0 cellspacing=0 height="100%"> <TR> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=HeaderTabs><A href="/loginRequired.jsp?access=true" target="_top"> Login </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=HeaderTabs><A href="/registration.jsp" target="_top"> Register </A> </TD> <TD bgcolor="#B8C6D8" width=1><img width=1 src="/images/spacer.gif"></TD> <TD nowrap class=HeaderTabs><a target="_top" href="/feedback.jsp"> Contact us </A> </TD> </TR> </TABLE> </TD> </TR> <TR> <TD height=1 colspan=8 bgcolor="#B8C6D8"><img height=1 src="/images/spacer.gif"></TD> </TR> </table> <table width="915" cellpadding=0 cellspacing=0 width="100%" border=0> <TR> <TD> </TD> <!--<TD><div><b><a href="/data/index.jsp">PANTHER17.0 Released</a>.</b></div></TD>--> <!-- <TD class=listResult valign=top>PANTHER version 17.0 contains <ul> <li>15,619 gene family phylogenetic trees -covering ~2 million genes</li> <li>from different species across the tree of life. <a href="/panther/summaryStats.jsp">more</a></li> </ul> </TD> <TD class=listResult valign=top>Each gene is classified by <ul> <li>protein class</li> <li>protein family and subfamily</li> <li>function (GO terms, pathways)</li> <li><a href="/data/">more</a></li> </TD> --> <TD align = "right" class="formLabel"> Current Release: <a href="/news/news20240620.jsp"><b>PANTHER 19.0</a></b> | <b><a href="/panther/index.jsp">15,683</a></b> family phylogenetic trees | <b><a href="/panther/summaryStats.jsp">144</a></b> species | <a href="/news/news20240620.jsp">News</a> <br><A href="/servlet/GenomeFunctionChartServlet?chartType=1&listType=1&annotType=5&species=Homo sapiens">Whole genome function views</A> </TD> </TR> </table> </div> <!-- end nav bar --> <!-- <table cellpadding=0 cellspacing=0> <tr> <td valign="top"> !--> <!-- </td> <td valign="top"> --><!--Main content page goes here--> <div id="mainBody"> <table width="900" border="0" cellspacing="0" cellpadding="0"> <tr class="tabs"> <td class="tab-L-off"></td> <td class="tab-BKG-off"><a href="/index.jsp">Gene List Analysis</a></td> <td class="tab-MIDDLE-off2-off1"> </td> <td class="tab-BKG-off"><a href="/panther/prowler.jsp?">Browse</a></td> <td class="tab-MIDDLE-off2-off1"> </td> <td class="tab-BKG-off"><a href="/tools/sequenceSearchForm.jsp?">Sequence Search</a></td> <td class="tab-MIDDLE-off-on"> </td> <td class="tab-BKG-on"><a href="/tools/csnpScoreForm.jsp?">Genetic Variant Impact</a></td> <td class="tab-MIDDLE-on-off"> </td> <td class="tab-BKG-off"><a href="/panther/globalSearch.jsp?">keyword Search</a></td> <td class="tab-R-off"> </td> </tr> <tr> <td colspan="11" class="tab_subpanel"><div class="tab_subpanel-inside"> <div class="header1">Evolutionary analysis of coding SNPs <a href="javascript:;" onClick="popout_window('/tips/tips_csnpScores.jsp','400','400')"><img src="/images/icons/bulb.gif" border="0" alt="Tips"></a></div> <BR> <!-- Main Content Goes Here --> <FORM NAME="csnpScoreForm" method="post" action="/tools/csnpScore.do"> <TABLE border=0 cellspacing=0 cellpadding=0> <TR> <TD class="mainText">Estimates the likelihood of a particular nonsynonymous (amino-acid changing) coding SNP to cause a functional impact on the protein. It calculates the length of time (in millions of years) a given amino acid has been preserved in the lineage leading to the protein of interest. The longer the preservation time, the greater the likelihood of functional impact. The method is called PANTHER-PSEP (position-specific evolutionary preservation) and is described in a <a href="http://www.ncbi.nlm.nih.gov/pubmed/27193693">recent publication</a>. Please cite this publication if you used either the downloadable tool or this web server. </TD> </TR> <TR> <td> </td> </tr> <TR> <TD> <TABLE> <TR> <TD class="mainText">Enter a protein sequence: <a href="javascript:;" onClick="popout_window('/tips/tips_exampleCsnpInput.jsp#protein','400','400')"><img src="/images/icons/bulb.gif" border="0" alt="Tips"></a><BR> <TEXTAREA COLS=60 ROWS=9 NAME="sequence"></TEXTAREA> </TD> <TD class="mainText">Please note that, for technical reasons, the cSNP scoring tool uses data from PANTHER version 9.0 rather than the latest version. </TD> </TR> </TABLE> </TD> </TD> </TR> <TR> <td> </td> </tr> <TR> <TD class="mainText">Enter substitution(s), e.g. L46P <a href="javascript:;" onClick="popout_window('/tips/tips_exampleCsnpInput.jsp#substitutions','400','400')"><img src="/images/icons/bulb.gif" border="0" alt="Tips"></a><BR> <TEXTAREA COLS=40 ROWS=6 NAME="substitutions"></TEXTAREA> </TD> </TR> <TR> <td> </td> </tr> <TR> <TD class="mainText">Select single organism<BR> <input type="hidden" name="organism" value=""/> <table cellpadding="2" cellspacing="1" border="0"> <tr> <td> <select size=5 name="dataset" > <option selected="true" value="Homo sapiens" > Homo sapiens</option> <option value="Mus musculus" > Mus musculus</option> <option value="Rattus norvegicus" > Rattus norvegicus</option> <option value="Gallus gallus" > Gallus gallus</option> <option value="Danio rerio" > Danio rerio</option> <option value="Drosophila melanogaster" > Drosophila melanogaster</option> <option value="Caenorhabditis elegans" > Caenorhabditis elegans</option> <option value="Saccharomyces cerevisiae" > Saccharomyces cerevisiae</option> <option value="Schizosaccharomyces pombe" > Schizosaccharomyces pombe</option> <option value="Dictyostelium discoideum" > Dictyostelium discoideum</option> <option value="Arabidopsis thaliana" > Arabidopsis thaliana</option> <option value="Escherichia coli" > Escherichia coli</option> <option value="Emericella nidulans" > Emericella nidulans</option> <option value="Anolis carolinensis" > Anolis carolinensis</option> <option value="Anopheles gambiae" > Anopheles gambiae</option> <option value="Aquifex aeolicus" > Aquifex aeolicus</option> <option value="Ashbya gossypii" > Ashbya gossypii</option> <option value="Bacillus subtilis" > Bacillus subtilis</option> <option value="Bacteroides thetaiotaomicron" > Bacteroides thetaiotaomicron</option> <option value="Batrachochytrium dendrobatidis" > Batrachochytrium dendrobatidis</option> <option value="Bos taurus" > Bos taurus</option> <option value="Bradyrhizobium japonicum" > Bradyrhizobium japonicum</option> <option value="Branchiostoma floridae" > Branchiostoma floridae</option> <option value="Caenorhabditis briggsae" > Caenorhabditis briggsae</option> <option value="Candida albicans" > Candida albicans</option> <option value="Canis familiaris" > Canis familiaris</option> <option value="Chlamydia trachomatis" > Chlamydia trachomatis</option> <option value="Chlamydomonas reinhardtii" > Chlamydomonas reinhardtii</option> <option value="Chloroflexus aurantiacus" > Chloroflexus aurantiacus</option> <option value="Ciona intestinalis" > Ciona intestinalis</option> <option value="Cryptococcus neoformans" > Cryptococcus neoformans</option> <option value="Daphnia pulex" > Daphnia pulex</option> <option value="Deinococcus radiodurans" > Deinococcus radiodurans</option> <option value="Dictyoglomus turgidum" > Dictyoglomus turgidum</option> <option value="Dictyostelium purpureum" > Dictyostelium purpureum</option> <option value="Entamoeba histolytica" > Entamoeba histolytica</option> <option value="Equus caballus" > Equus caballus</option> <option value="Fusobacterium nucleatum" > Fusobacterium nucleatum</option> <option value="Geobacter sulfurreducens" > Geobacter sulfurreducens</option> <option value="Giardia intestinalis" > Giardia intestinalis</option> <option value="Gloeobacter violaceus" > Gloeobacter violaceus</option> <option value="Halobacterium salinarum" > Halobacterium salinarum</option> <option value="Ixodes scapularis" > Ixodes scapularis</option> <option value="Korarchaeum cryptofilum" > Korarchaeum cryptofilum</option> <option value="Leishmania major" > Leishmania major</option> <option value="Leptospira interrogans" > Leptospira interrogans</option> <option value="Macaca mulatta" > Macaca mulatta</option> <option value="Methanocaldococcus jannaschii" > Methanocaldococcus jannaschii</option> <option value="Methanosarcina acetivorans" > Methanosarcina acetivorans</option> <option value="Monodelphis domestica" > Monodelphis domestica</option> <option value="Monosiga brevicollis" > Monosiga brevicollis</option> <option value="Mycobacterium tuberculosis" > Mycobacterium tuberculosis</option> <option value="Nematostella vectensis" > Nematostella vectensis</option> <option value="Neurospora crassa" > Neurospora crassa</option> <option value="Ornithorhynchus anatinus" > Ornithorhynchus anatinus</option> <option value="Oryza sativa" > Oryza sativa</option> <option value="Pan troglodytes" > Pan troglodytes</option> <option value="Phaeosphaeria nodorum" > Phaeosphaeria nodorum</option> <option value="Physcomitrella patens" > Physcomitrella patens</option> <option value="Phytophthora infestans" > Phytophthora infestans</option> <option value="Plasmodium falciparum" > Plasmodium falciparum</option> <option value="Pristionchus pacificus" > Pristionchus pacificus</option> <option value="Pseudomonas aeruginosa" > Pseudomonas aeruginosa</option> <option value="Puccinia graminis" > Puccinia graminis</option> <option value="Pyrobaculum aerophilum" > Pyrobaculum aerophilum</option> <option value="Pyrococcus kodakaraensis" > Pyrococcus kodakaraensis</option> <option value="Rhodopirellula baltica" > Rhodopirellula baltica</option> <option value="Schistosoma mansoni" > Schistosoma mansoni</option> <option value="Sclerotinia sclerotiorum" > Sclerotinia sclerotiorum</option> <option value="Streptomyces coelicolor" > Streptomyces coelicolor</option> <option value="Strongylocentrotus purpuratus" > Strongylocentrotus purpuratus</option> <option value="Sulfolobus solfataricus" > Sulfolobus solfataricus</option> <option value="Sus scrofa" > Sus scrofa</option> <option value="Synechocystis" > Synechocystis</option> <option value="Takifugu rubripes" > Takifugu rubripes</option> <option value="Tetrahymena thermophila" > Tetrahymena thermophila</option> <option value="Thalassiosira pseudonana" > Thalassiosira pseudonana</option> <option value="Thermodesulfovibrio yellowstonii" > Thermodesulfovibrio yellowstonii</option> <option value="Thermotoga maritima" > Thermotoga maritima</option> <option value="Trichomonas vaginalis" > Trichomonas vaginalis</option> <option value="Trichoplax adhaerens" > Trichoplax adhaerens</option> <option value="Trypanosoma brucei" > Trypanosoma brucei</option> <option value="Ustilago maydis" > Ustilago maydis</option> <option value="Xenopus tropicalis" > Xenopus tropicalis</option> <option value="Yarrowia lipolytica" > Yarrowia lipolytica</option> </select> </td> </tr> </table> </TD> </TR> <TR> <TD VALIGN="top"><hr size="1" noshade> </TD> </TR> <TR> <TD class="normal2" VALIGN="top" ALIGN="center"> <a href="javascript:document.csnpScoreForm.submit()" class="buttonOrange">Submit</a> </TD> </TR> <tr> <td><BR><span class="new">NEW!</span> <span class="product">To analyze many SNPs, download the PANTHER Coding Snp Analysis tool from the <A href="/downloads/">downloads</A> page.</span></td> </tr> </TABLE> </FORM> <!-- End Main Content --> </td> </tr> </table> </div> <!--</td></tr></table>--> <!-- Page Footer begins here --> <div id="footer"> <table width="915" cellpadding="0" cellspacing="0" border="0" width="100%"> <tr> <td align="center"> <span class="legal"> <DIV style=" padding: 0px 5px 0px 5px;text-align:center;vertical-align:middle;"> <a href="/about.jsp">About</a> | <a href="/releaseInfo.jsp">Release Information</a> | <a 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