257 lines
21 KiB
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257 lines
21 KiB
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var taxid = "9031",
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36946936, 'genbank': 'CM000099.4', 'refseq': 'NC_006094.4', 'canonical': 'NC_006094.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '8': {'name': '8', 'length': 29963013, 'genbank': 'CM000100.4', 'refseq': 'NC_006095.4', 'canonical': 'NC_006095.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '9': {'name': '9', 'length': 24091566, 'genbank': 'CM000101.4', 'refseq': 'NC_006096.4', 'canonical': 'NC_006096.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '10': {'name': '10', 'length': 20435342, 'genbank': 'CM000102.4', 'refseq': 'NC_006097.4', 'canonical': 'NC_006097.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '11': {'name': '11', 'length': 20218793, 'genbank': 'CM000103.4', 'refseq': 'NC_006098.4', 'canonical': 'NC_006098.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '12': {'name': '12', 'length': 19948154, 'genbank': 'CM000104.4', 'refseq': 'NC_006099.4', 'canonical': 'NC_006099.4', 'canonical_db_name': 'RefSeq', 'type': 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'genbank': 'CM003638.1', 'refseq': 'NC_028740.1', 'canonical': 'NC_028740.1', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '32': {'name': '32', 'length': 78254, 'genbank': 'CM000120.3', 'refseq': 'NC_006119.3', 'canonical': 'NC_006119.3', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, '33': {'name': '33', 'length': 1648031, 'genbank': 'CM000123.4', 'refseq': 'NC_008465.3', 'canonical': 'NC_008465.3', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, 'W': {'name': 'W', 'length': 5160035, 'genbank': 'CM000121.4', 'refseq': 'NC_006126.4', 'canonical': 'NC_006126.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, 'Z': {'name': 'Z', 'length': 82310166, 'genbank': 'CM000122.4', 'refseq': 'NC_006127.4', 'canonical': 'NC_006127.4', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}, 'LGE64': {'name': 'LGE64', 'length': 897576, 'genbank': 'CM000367.3', 'refseq': 'NC_008466.3', 'canonical': 'NC_008466.3', 'canonical_db_name': 'RefSeq', 'type': 'chromosome'}}},
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assemblies = [{'name': 'GRCg6a', 'type': 'Major', 'gb_acc': 'GCA_000002315.5', 'rs_acc': 'GCF_000002315.5', 'accessions': {'genBank': 'GCA_000002315.5', 'refSeq': 'GCF_000002315.5'}, 'release_date': '2018-03-27', 'pretty_release_date': 'March 27, 2018', 'release_notes': 'GRCg6a is an update to the chicken reference assembly that replaces GRCg6. Chromosome coordinates in the two assemblies are unchanged. The GRCg6a update was produced to exclude four unlocalized GRCg6 scaffolds that are redundant to localized sequences on chr. W and Z (KZ626820.1, KZ626821.1, KZ626822.1, KZ626823.1). These scaffolds have been removed from GRCg6a; the assemblies are otherwise identical.', 'group': '9', 'ftp_path': 'GCA/000/002/315/GCA_000002315.5_GRCg6a'}, {'name': 'Gallus_gallus-5.0', 'type': 'Major', 'gb_acc': 'GCA_000002315.3', 'rs_acc': 'GCF_000002315.4', 'accessions': {'genBank': 'GCA_000002315.3', 'refSeq': 'GCF_000002315.4'}, 'release_date': '2015-12-16', 'pretty_release_date': 'December 16, 2015', 'release_notes': 'This assembly was released by the International Chicken Genome Consortium. The GRC are now working to curate the chicken reference genome assembly.', 'group': '9', 'ftp_path': 'GCA/000/002/315/GCA_000002315.3_Gallus_gallus-5.0'}], // Assemblies that have issue mappings for this organism
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asmAcc = "",
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asmName = "GRCg6a",
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organism = {'taxid': '9031', 'common_name': 'Chicken', 'common_name_lowercase': 'chicken', 'scientific_name': 'Gallus gallus'},
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uncuratedChromosomes = ['14', '17', '22', '33', 'Un'];
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<li class="gene-example">Gene: <a href="?q=DOCK3">DOCK3</a>, <a href="?q=COL13A1">COL13A1</a></li>
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<li class="location-example">Location: <a href="?q=chrW:4936578-5139720">chrW:4,936,578-5,139,720</a></li>
|
|
<li class="clone-accession-example">Clone accession: <a href="?q=AC177807.2">AC177807.2</a></li>
|
|
<li class="clone-name-example">Clone name: <a href="?q=CH261-183A10">CH261-183A10</a></li>
|
|
<li class="issue-id-example">Issue ID: <a href="?q=GG-3">GG-3</a></li>
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|
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</ul>
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</div>
|
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</div>
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|
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<div id="facets" class="gb-section gb-open" style="margin-right: 0; display:none;">
|
|
<h4>
|
|
<input type="checkbox" id="filter_all" class="group-filter" title="Select or deselect all filters"/> Filter <span id="facet-options"><a title="Add or remove facets" href="#">+</a></span>
|
|
</h4>
|
|
<div class="gb-section-body">
|
|
<div id="checkbox-facets"></div>
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</div>
|
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</div>
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|
|
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</div>
|
|
|
|
<div id="results">
|
|
<div id="chart"></div>
|
|
|
|
<!-- <div id="ideogram-container">
|
|
<div id="ideogram"></div>
|
|
<div id="ideogram-legend" class="undisplayed">(Legend goes here.)</div>
|
|
<div class="clearfix"></div>
|
|
</div> --!>
|
|
|
|
<div id="results-table-container">
|
|
<table id="issues-table">
|
|
<thead>
|
|
<th id="issue-id-column-header">Issue ID</th>
|
|
<th id="type-column-header">Type</th>
|
|
<!-- <th id="region-column-header">Region</th> -->
|
|
<th id="location-column-header">Location</th>
|
|
<th id="total-placements-column-header">Total placements</th>
|
|
<th id="status-column-header">Status</th>
|
|
<!-- <th id="resolution-column-header">Resolution</th> -->
|
|
<!-- <th id="affects-column-header">Affects version</th> -->
|
|
<th id="fix-column-header" >Fix version</th>
|
|
<th id="browsers-column-header">View in browsers</th>
|
|
<!-- <th id="scaffold-type-column-header">Scaffold type</th> -->
|
|
<th id="summary-column-header">Summary</th>
|
|
</thead>
|
|
<tbody>
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
|
|
<script type="text/javascript">
|
|
|
|
if (typeof issues == "undefined") {
|
|
// Recovery mechanism for when filter-data.js cannot be found
|
|
$.ajax({
|
|
url: "?org=chicken&no-cache=1&format=js",
|
|
dataType: "script",
|
|
async: false
|
|
});
|
|
}
|
|
|
|
var searchSpace = issues;
|
|
</script>
|
|
<div id="glossary-dialog" style="display: none"></div>
|
|
|
|
|
|
</div>
|
|
</div>
|
|
<div class="cleaner"></div>
|
|
<div id="footer">
|
|
<ul>
|
|
<li><a title="Get GRC data via FTP" href="https://ftp.ncbi.nlm.nih.gov/pub/grc/">FTP</a></li>
|
|
<li><a target="_blank" href="https://www.genome.gov">NHGRI</a></li>
|
|
<li><a target="_blank" href="http://www.wellcome.ac.uk">Wellcome Sanger Institute</a></li>
|
|
<li><a target="_blank" href="https://www.hhs.gov">HHS</a></li>
|
|
<li><a target="_blank" href="https://www.nih.gov">NIH</a></li>
|
|
<li><a target="_blank" href="https://www.nih.gov/web-policies-notices">Accessibility</a></li>
|
|
<li class="last"><a target="_blank" href="https://www.hhs.gov/vulnerability-disclosure-policy/index.html">HHS Vulnerability Disclosure</a></li>
|
|
</ul>
|
|
</div>
|
|
</div>
|
|
</div><!-- end page -->
|
|
|
|
<script type="text/javascript" src="/portal/portal3rc.fcgi/rlib/js/InstrumentNCBIBaseJS/InstrumentPageStarterJS.js"></script>
|
|
</body>
|
|
</html>
|