261 lines
9.5 KiB
Text
261 lines
9.5 KiB
Text
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<!DOCTYPE html>
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<html>
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<head>
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<title>region2 region of the zebrafish genome - Genome Reference Consortium</title>
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<meta name="ncbi_pagetitle" content="region2 region of the zebrafish genome" />
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color: #EFEFEF;
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}
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<img alt="GRC logo" src="/grc/static/grc/img/GRC_logo_reasonably_small.png" /><img src="/grc/static/grc/img/TitleBanner.png" alt="Genome Reference Consortium" /></a>
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<a id="skipnav" href="#main">Skip navigation and go to main content</a>
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<li><a href="/grc/zebrafish" id="organismOverviewMenuItem">Zebrafish Overview</a></li>
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</div><!--end menu-->
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<div id="main"><a name="main"></a>
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<div id="regionPage">
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<div id="contents" style="overflow:hidden;">
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<h1>Zebrafish Genome Region region2</h1>
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<dl id="issue_info" style="margin-top: 10px;">
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<dt>Assembly:</dt><dd><a href="/assembly/?term=GRCz11">GRCz11</a></dd>
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<dt>Location:</dt><dd>chr1:8,535,517-9,285,746</dd>
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<dt>Cytogenetic location:</dt><dd id="cytoloc"></dd>
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</dl>
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<!---
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<div id="ideogram" class="empty_ideogram">
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<p class="wait">Loading ideogram...</p>
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</div>
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--!>
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<h2 style="padding-top: 1em;">No associated genome issues</h2>
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<div>
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<table id="sequenceInformation" class="grc ">
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<thead>
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<caption>Patches and alternate loci</h2>
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<tr>
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<th>Show in Viewer</th>
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<th>GenBank ID</th>
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<th>RefSeq ID</th>
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<th>Scaffold type</th>
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<th>Length</th>
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<!-- <th>Assembly gaps</th> -->
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<th>Alignment mismatch</th>
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<th>Unique sequence</th>
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</tr>
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</thead>
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<tbody>
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<tr>
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<td>
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<label class="cellLabel" for="sviewerSelection_NW_018394460.1"> <input type="radio" id="sviewerSelection_scaffold_NW_018394460.1" name="viewerSelection" /> View this ALT</label>
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</td>
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<td><a href="/nucleotide/KZ114997.1" target="_blank" title="GenBank record for KZ114997.1">KZ114997.1</a></td>
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<td>
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<a href="/nucleotide/NW_018394460.1" target="_blank" title="RefSeq record for NW_018394460.1">NW_018394460.1</a></td>
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<td>ALT</td>
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<td>304,771</td>
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<!-- <td></td> -->
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<td>3,425</td>
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<td>7,775</td>
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</tr>
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<tr>
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<td>
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<label class="cellLabel" for="sviewerSelection_NW_018394461.1"> <input type="radio" id="sviewerSelection_scaffold_NW_018394461.1" name="viewerSelection" /> View this ALT</label>
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</td>
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<td><a href="/nucleotide/KZ114998.1" target="_blank" title="GenBank record for KZ114998.1">KZ114998.1</a></td>
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<td>
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<a href="/nucleotide/NW_018394461.1" target="_blank" title="RefSeq record for NW_018394461.1">NW_018394461.1</a></td>
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<td>ALT</td>
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<td>385,560</td>
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<!-- <td></td> -->
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<td>5,570</td>
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<td>22,816</td>
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</tr>
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</tbody>
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<tfoot>
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<tr>
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<td><label class="cellLabel" for="sviewerSelection_region_NC_007112.7" style="padding-left: 5px"><input type="radio" id="sviewerSelection_region_NC_007112.7" name="viewerSelection" checked="checked" /> View all region2</label></td>
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<td> </td>
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<td> </td>
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<td> </td>
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<td> </td>
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<td> </td>
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<td> </td>
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</tr>
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</tfoot>
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</table>
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</div>
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<h2 id="svHeader">
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region2 -- chr1 (<a href="/nucleotide/NC_007112.7" target="_blank" title=" RefSeq record for NC_007112.7">NC_007112.7</a>):8,535,517-9,285,746
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</h2>
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<div id="svContainer" style="margin-bottom: 250px">
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<div id="svWrapper" class="svWrapper shown">
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<div id="sv_0" class="SeqViewerApp" ></div>
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</div>
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</div>
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<script type="text/javascript">
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var chromosomeName = "1",
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chrStart = jQuery.decommify("8,535,517"),
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chrStop = jQuery.decommify("9,285,746"),
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taxid = "7955",
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assemblyName = "GRCz11".split(".")[0], // minor assembly name -> major assembly name
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majorAssemblyName = "GRCz11".split(".")[0],
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annotOnScaffold = ("chromosome" == "scaffold");
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var region = {
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chromosomeID: "NC_007112.7",
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chromosomeName: "1",
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chromosomeType: "chromosome",
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start: "8,535,517",
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stop: "9,285,746",
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dbName: "RefSeq"
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}
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var sviewerUrls = {
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"chromosome": "?embedded=true&appname=grc&id=NC_007112.7&app_context=GRC_Regions&assm_context=GCF_000002035.6&v=8535517:9285746&nocache=1",
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"scaffolds": [{'ids': {'genbank': 'KZ114997.1', 'refseq': 'NW_018394460.1', 'canonical': 'NW_018394460.1', 'canonical_db_name': 'RefSeq'}, 'patch_type': 'ALT', 'length': '304,771', 'unique_sequence': '7,775', 'alignment_mismatch': '3,425', 'sequence_viewer_url': '?embedded=true&appname=grc&id=NW_018394460.1&app_context=GRC_Regions&assm_context=GCF_000002035.6&nocache=1'}, {'ids': {'genbank': 'KZ114998.1', 'refseq': 'NW_018394461.1', 'canonical': 'NW_018394461.1', 'canonical_db_name': 'RefSeq'}, 'patch_type': 'ALT', 'length': '385,560', 'unique_sequence': '22,816', 'alignment_mismatch': '5,570', 'sequence_viewer_url': '?embedded=true&appname=grc&id=NW_018394461.1&app_context=GRC_Regions&assm_context=GCF_000002035.6&nocache=1'}]
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}
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$(document).ready(function(){
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//$.ajax({
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// url: '/projects/ideogram/data/bp2band.cgi?' + $.param({taxid: "7955", assm: majorAssemblyName}),
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// data: 'chromosome\tbp_start\tbp_stop\n1\t' + chrStart + '\t' + chrStop + '\n',
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// contentType: 'text/csv',
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// processData: false,
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// dataType: 'json',
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// type: 'POST'
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//}).done(function(data) {$('#cytoloc').text(data.coords[0].band);});
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});
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</script>
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<li><a title="Get GRC data via FTP" href="https://ftp.ncbi.nlm.nih.gov/pub/grc/">FTP</a></li>
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<li><a target="_blank" href="https://www.genome.gov">NHGRI</a></li>
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<li><a target="_blank" href="http://www.wellcome.ac.uk">Wellcome Sanger Institute</a></li>
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<li><a target="_blank" href="https://www.hhs.gov">HHS</a></li>
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