Institute of Cardiovascular Regeneration Webtool Repository

Region Summary

Notice (8): Undefined index: CIL_000959_0001 [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(),
	'gene_desc_arr' => array(
		'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
		'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
		'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
		'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
		'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
		'ENSMUSG00000089425' => 'predicted gene, 26006',
		'ENSMUSG00000096444' => 'predicted gene, 26139',
		'ENSMUSG00000098059' => 'predicted gene, 27034'
	),
	'gene_name_arr' => array(
		'ENSG00000200037' => 'RNA5SP32',
		'ENSG00000212377' => 'SNORD37',
		'ENSG00000227952' => 'RPL18AP17',
		'ENSG00000232881' => 'RPS10P21',
		'ENSG00000251715' => 'SNORA68',
		'ENSMUSG00000089425' => 'Gm26006',
		'ENSMUSG00000096444' => 'Gm26139',
		'ENSMUSG00000098059' => 'Gm27034'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(),
	'column_titles' => array(
		(int) 0 => 'Region Sub-Accession',
		(int) 1 => 'Tax ID',
		(int) 2 => 'Position',
		(int) 3 => 'Region Length'
	),
	'geneviewer' => array(
		(int) 9606 => array(
			'version' => 'GRCh38',
			'coord_key' => 'Homo sapiens',
			'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCh38.2bit',
			'bwgURI' => '/static/files/GRCh38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 10090 => array(
			'version' => 'GRCm38',
			'coord_key' => 'Mus musculus',
			'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCm38.2bit',
			'bwgURI' => '/static/files/GRCm38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 7955 => array(
			'version' => 'Zv9',
			'coord_key' => 'Danio rerio',
			'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
			'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
			'twoBitURI' => '/static/files/Zv9.2bit',
			'bwgURI' => '/static/files/Zv9.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		)
	),
	'transcript_count' => (int) 8,
	'longest_tissue_len' => (int) 0,
	'transcript_data' => array(
		'ENST00000363167' => array(
			'start' => '71978088',
			'end' => '71978206',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP32-201'
		),
		'ENST00000391075' => array(
			'start' => '72453902',
			'end' => '72453967',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORD37.1-202'
		),
		'ENST00000455326' => array(
			'start' => '72460132',
			'end' => '72460329',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPL18AP17-001'
		),
		'ENST00000430654' => array(
			'start' => '71913704',
			'end' => '71914178',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPS10P21-001'
		),
		'ENST00000515906' => array(
			'start' => '72460519',
			'end' => '72460601',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORA68.1-204'
		),
		'ENSMUST00000158800' => array(
			'start' => '98260745',
			'end' => '98260825',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'Gm26006-201'
		),
		'ENSMUST00000180098' => array(
			'start' => '98624190',
			'end' => '98624296',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm26139-201'
		),
		'ENSMUST00000182552' => array(
			'start' => '98714813',
			'end' => '98715752',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm27034-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array()
)
$region_arr = array()
$gene_desc_arr = array(
	'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
	'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
	'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
	'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
	'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
	'ENSMUSG00000089425' => 'predicted gene, 26006',
	'ENSMUSG00000096444' => 'predicted gene, 26139',
	'ENSMUSG00000098059' => 'predicted gene, 27034'
)
$gene_name_arr = array(
	'ENSG00000200037' => 'RNA5SP32',
	'ENSG00000212377' => 'SNORD37',
	'ENSG00000227952' => 'RPL18AP17',
	'ENSG00000232881' => 'RPS10P21',
	'ENSG00000251715' => 'SNORA68',
	'ENSMUSG00000089425' => 'Gm26006',
	'ENSMUSG00000096444' => 'Gm26139',
	'ENSMUSG00000098059' => 'Gm27034'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0001',
			'tax_id' => '9606',
			'chromosome' => '13',
			'seq_start' => '71897133',
			'seq_end' => '72499738',
			'region_length' => '602605',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0002',
			'tax_id' => '10090',
			'chromosome' => '14',
			'seq_start' => '98236184',
			'seq_end' => '98838781',
			'region_length' => '602597',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	)
)
$all_tissues = array()
$column_titles = array(
	(int) 0 => 'Region Sub-Accession',
	(int) 1 => 'Tax ID',
	(int) 2 => 'Position',
	(int) 3 => 'Region Length'
)
$geneviewer = array(
	(int) 9606 => array(
		'version' => 'GRCh38',
		'coord_key' => 'Homo sapiens',
		'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCh38.2bit',
		'bwgURI' => '/static/files/GRCh38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 10090 => array(
		'version' => 'GRCm38',
		'coord_key' => 'Mus musculus',
		'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCm38.2bit',
		'bwgURI' => '/static/files/GRCm38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 7955 => array(
		'version' => 'Zv9',
		'coord_key' => 'Danio rerio',
		'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
		'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
		'twoBitURI' => '/static/files/Zv9.2bit',
		'bwgURI' => '/static/files/Zv9.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	)
)
$transcript_count = (int) 8
$longest_tissue_len = (int) 0
$transcript_data = array(
	'ENST00000363167' => array(
		'start' => '71978088',
		'end' => '71978206',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP32-201'
	),
	'ENST00000391075' => array(
		'start' => '72453902',
		'end' => '72453967',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORD37.1-202'
	),
	'ENST00000455326' => array(
		'start' => '72460132',
		'end' => '72460329',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPL18AP17-001'
	),
	'ENST00000430654' => array(
		'start' => '71913704',
		'end' => '71914178',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPS10P21-001'
	),
	'ENST00000515906' => array(
		'start' => '72460519',
		'end' => '72460601',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORA68.1-204'
	),
	'ENSMUST00000158800' => array(
		'start' => '98260745',
		'end' => '98260825',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'Gm26006-201'
	),
	'ENSMUST00000180098' => array(
		'start' => '98624190',
		'end' => '98624296',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm26139-201'
	),
	'ENSMUST00000182552' => array(
		'start' => '98714813',
		'end' => '98715752',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm27034-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array()
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000959_0001',
		'tax_id' => '9606',
		'chromosome' => '13',
		'seq_start' => '71897133',
		'seq_end' => '72499738',
		'region_length' => '602605',
		'region_type' => 'VISTA',
		'el_id' => 'hs131'
	)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(),
	'gene_desc_arr' => array(
		'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
		'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
		'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
		'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
		'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
		'ENSMUSG00000089425' => 'predicted gene, 26006',
		'ENSMUSG00000096444' => 'predicted gene, 26139',
		'ENSMUSG00000098059' => 'predicted gene, 27034'
	),
	'gene_name_arr' => array(
		'ENSG00000200037' => 'RNA5SP32',
		'ENSG00000212377' => 'SNORD37',
		'ENSG00000227952' => 'RPL18AP17',
		'ENSG00000232881' => 'RPS10P21',
		'ENSG00000251715' => 'SNORA68',
		'ENSMUSG00000089425' => 'Gm26006',
		'ENSMUSG00000096444' => 'Gm26139',
		'ENSMUSG00000098059' => 'Gm27034'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(),
	'column_titles' => array(
		(int) 0 => 'Region Sub-Accession',
		(int) 1 => 'Tax ID',
		(int) 2 => 'Position',
		(int) 3 => 'Region Length'
	),
	'geneviewer' => array(
		(int) 9606 => array(
			'version' => 'GRCh38',
			'coord_key' => 'Homo sapiens',
			'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCh38.2bit',
			'bwgURI' => '/static/files/GRCh38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 10090 => array(
			'version' => 'GRCm38',
			'coord_key' => 'Mus musculus',
			'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCm38.2bit',
			'bwgURI' => '/static/files/GRCm38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 7955 => array(
			'version' => 'Zv9',
			'coord_key' => 'Danio rerio',
			'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
			'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
			'twoBitURI' => '/static/files/Zv9.2bit',
			'bwgURI' => '/static/files/Zv9.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		)
	),
	'transcript_count' => (int) 8,
	'longest_tissue_len' => (int) 0,
	'transcript_data' => array(
		'ENST00000363167' => array(
			'start' => '71978088',
			'end' => '71978206',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP32-201'
		),
		'ENST00000391075' => array(
			'start' => '72453902',
			'end' => '72453967',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORD37.1-202'
		),
		'ENST00000455326' => array(
			'start' => '72460132',
			'end' => '72460329',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPL18AP17-001'
		),
		'ENST00000430654' => array(
			'start' => '71913704',
			'end' => '71914178',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPS10P21-001'
		),
		'ENST00000515906' => array(
			'start' => '72460519',
			'end' => '72460601',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORA68.1-204'
		),
		'ENSMUST00000158800' => array(
			'start' => '98260745',
			'end' => '98260825',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'Gm26006-201'
		),
		'ENSMUST00000180098' => array(
			'start' => '98624190',
			'end' => '98624296',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm26139-201'
		),
		'ENSMUST00000182552' => array(
			'start' => '98714813',
			'end' => '98715752',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm27034-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array()
)
$region_arr = array()
$gene_desc_arr = array(
	'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
	'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
	'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
	'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
	'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
	'ENSMUSG00000089425' => 'predicted gene, 26006',
	'ENSMUSG00000096444' => 'predicted gene, 26139',
	'ENSMUSG00000098059' => 'predicted gene, 27034'
)
$gene_name_arr = array(
	'ENSG00000200037' => 'RNA5SP32',
	'ENSG00000212377' => 'SNORD37',
	'ENSG00000227952' => 'RPL18AP17',
	'ENSG00000232881' => 'RPS10P21',
	'ENSG00000251715' => 'SNORA68',
	'ENSMUSG00000089425' => 'Gm26006',
	'ENSMUSG00000096444' => 'Gm26139',
	'ENSMUSG00000098059' => 'Gm27034'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0001',
			'tax_id' => '9606',
			'chromosome' => '13',
			'seq_start' => '71897133',
			'seq_end' => '72499738',
			'region_length' => '602605',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0002',
			'tax_id' => '10090',
			'chromosome' => '14',
			'seq_start' => '98236184',
			'seq_end' => '98838781',
			'region_length' => '602597',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	)
)
$all_tissues = array()
$column_titles = array(
	(int) 0 => 'Region Sub-Accession',
	(int) 1 => 'Tax ID',
	(int) 2 => 'Position',
	(int) 3 => 'Region Length'
)
$geneviewer = array(
	(int) 9606 => array(
		'version' => 'GRCh38',
		'coord_key' => 'Homo sapiens',
		'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCh38.2bit',
		'bwgURI' => '/static/files/GRCh38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 10090 => array(
		'version' => 'GRCm38',
		'coord_key' => 'Mus musculus',
		'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCm38.2bit',
		'bwgURI' => '/static/files/GRCm38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 7955 => array(
		'version' => 'Zv9',
		'coord_key' => 'Danio rerio',
		'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
		'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
		'twoBitURI' => '/static/files/Zv9.2bit',
		'bwgURI' => '/static/files/Zv9.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	)
)
$transcript_count = (int) 8
$longest_tissue_len = (int) 0
$transcript_data = array(
	'ENST00000363167' => array(
		'start' => '71978088',
		'end' => '71978206',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP32-201'
	),
	'ENST00000391075' => array(
		'start' => '72453902',
		'end' => '72453967',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORD37.1-202'
	),
	'ENST00000455326' => array(
		'start' => '72460132',
		'end' => '72460329',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPL18AP17-001'
	),
	'ENST00000430654' => array(
		'start' => '71913704',
		'end' => '71914178',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPS10P21-001'
	),
	'ENST00000515906' => array(
		'start' => '72460519',
		'end' => '72460601',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORA68.1-204'
	),
	'ENSMUST00000158800' => array(
		'start' => '98260745',
		'end' => '98260825',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'Gm26006-201'
	),
	'ENSMUST00000180098' => array(
		'start' => '98624190',
		'end' => '98624296',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm26139-201'
	),
	'ENSMUST00000182552' => array(
		'start' => '98714813',
		'end' => '98715752',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm27034-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array()
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000959_0001',
		'tax_id' => '9606',
		'chromosome' => '13',
		'seq_start' => '71897133',
		'seq_end' => '72499738',
		'region_length' => '602605',
		'region_type' => 'VISTA',
		'el_id' => 'hs131'
	)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

Source ID		Type	Tax ID	Position
hs131		VISTA	9606	13:71897133-72499738
Gene		Transcript	Position	Biotype

Genome

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Genes

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Transcripts

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CIL_000959_0002 (Click to Hide/Show)

Notice (8): Undefined index: CIL_000959_0002 [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(),
	'gene_desc_arr' => array(
		'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
		'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
		'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
		'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
		'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
		'ENSMUSG00000089425' => 'predicted gene, 26006',
		'ENSMUSG00000096444' => 'predicted gene, 26139',
		'ENSMUSG00000098059' => 'predicted gene, 27034'
	),
	'gene_name_arr' => array(
		'ENSG00000200037' => 'RNA5SP32',
		'ENSG00000212377' => 'SNORD37',
		'ENSG00000227952' => 'RPL18AP17',
		'ENSG00000232881' => 'RPS10P21',
		'ENSG00000251715' => 'SNORA68',
		'ENSMUSG00000089425' => 'Gm26006',
		'ENSMUSG00000096444' => 'Gm26139',
		'ENSMUSG00000098059' => 'Gm27034'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(),
	'column_titles' => array(
		(int) 0 => 'Region Sub-Accession',
		(int) 1 => 'Tax ID',
		(int) 2 => 'Position',
		(int) 3 => 'Region Length'
	),
	'geneviewer' => array(
		(int) 9606 => array(
			'version' => 'GRCh38',
			'coord_key' => 'Homo sapiens',
			'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCh38.2bit',
			'bwgURI' => '/static/files/GRCh38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 10090 => array(
			'version' => 'GRCm38',
			'coord_key' => 'Mus musculus',
			'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCm38.2bit',
			'bwgURI' => '/static/files/GRCm38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 7955 => array(
			'version' => 'Zv9',
			'coord_key' => 'Danio rerio',
			'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
			'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
			'twoBitURI' => '/static/files/Zv9.2bit',
			'bwgURI' => '/static/files/Zv9.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		)
	),
	'transcript_count' => (int) 8,
	'longest_tissue_len' => (int) 0,
	'transcript_data' => array(
		'ENST00000363167' => array(
			'start' => '71978088',
			'end' => '71978206',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP32-201'
		),
		'ENST00000391075' => array(
			'start' => '72453902',
			'end' => '72453967',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORD37.1-202'
		),
		'ENST00000455326' => array(
			'start' => '72460132',
			'end' => '72460329',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPL18AP17-001'
		),
		'ENST00000430654' => array(
			'start' => '71913704',
			'end' => '71914178',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPS10P21-001'
		),
		'ENST00000515906' => array(
			'start' => '72460519',
			'end' => '72460601',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORA68.1-204'
		),
		'ENSMUST00000158800' => array(
			'start' => '98260745',
			'end' => '98260825',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'Gm26006-201'
		),
		'ENSMUST00000180098' => array(
			'start' => '98624190',
			'end' => '98624296',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm26139-201'
		),
		'ENSMUST00000182552' => array(
			'start' => '98714813',
			'end' => '98715752',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm27034-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array()
)
$region_arr = array()
$gene_desc_arr = array(
	'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
	'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
	'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
	'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
	'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
	'ENSMUSG00000089425' => 'predicted gene, 26006',
	'ENSMUSG00000096444' => 'predicted gene, 26139',
	'ENSMUSG00000098059' => 'predicted gene, 27034'
)
$gene_name_arr = array(
	'ENSG00000200037' => 'RNA5SP32',
	'ENSG00000212377' => 'SNORD37',
	'ENSG00000227952' => 'RPL18AP17',
	'ENSG00000232881' => 'RPS10P21',
	'ENSG00000251715' => 'SNORA68',
	'ENSMUSG00000089425' => 'Gm26006',
	'ENSMUSG00000096444' => 'Gm26139',
	'ENSMUSG00000098059' => 'Gm27034'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0001',
			'tax_id' => '9606',
			'chromosome' => '13',
			'seq_start' => '71897133',
			'seq_end' => '72499738',
			'region_length' => '602605',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0002',
			'tax_id' => '10090',
			'chromosome' => '14',
			'seq_start' => '98236184',
			'seq_end' => '98838781',
			'region_length' => '602597',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	)
)
$all_tissues = array()
$column_titles = array(
	(int) 0 => 'Region Sub-Accession',
	(int) 1 => 'Tax ID',
	(int) 2 => 'Position',
	(int) 3 => 'Region Length'
)
$geneviewer = array(
	(int) 9606 => array(
		'version' => 'GRCh38',
		'coord_key' => 'Homo sapiens',
		'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCh38.2bit',
		'bwgURI' => '/static/files/GRCh38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 10090 => array(
		'version' => 'GRCm38',
		'coord_key' => 'Mus musculus',
		'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCm38.2bit',
		'bwgURI' => '/static/files/GRCm38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 7955 => array(
		'version' => 'Zv9',
		'coord_key' => 'Danio rerio',
		'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
		'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
		'twoBitURI' => '/static/files/Zv9.2bit',
		'bwgURI' => '/static/files/Zv9.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	)
)
$transcript_count = (int) 8
$longest_tissue_len = (int) 0
$transcript_data = array(
	'ENST00000363167' => array(
		'start' => '71978088',
		'end' => '71978206',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP32-201'
	),
	'ENST00000391075' => array(
		'start' => '72453902',
		'end' => '72453967',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORD37.1-202'
	),
	'ENST00000455326' => array(
		'start' => '72460132',
		'end' => '72460329',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPL18AP17-001'
	),
	'ENST00000430654' => array(
		'start' => '71913704',
		'end' => '71914178',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPS10P21-001'
	),
	'ENST00000515906' => array(
		'start' => '72460519',
		'end' => '72460601',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORA68.1-204'
	),
	'ENSMUST00000158800' => array(
		'start' => '98260745',
		'end' => '98260825',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'Gm26006-201'
	),
	'ENSMUST00000180098' => array(
		'start' => '98624190',
		'end' => '98624296',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm26139-201'
	),
	'ENSMUST00000182552' => array(
		'start' => '98714813',
		'end' => '98715752',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm27034-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array()
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000959_0002',
		'tax_id' => '10090',
		'chromosome' => '14',
		'seq_start' => '98236184',
		'seq_end' => '98838781',
		'region_length' => '602597',
		'region_type' => 'VISTA',
		'el_id' => 'hs131'
	)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(),
	'gene_desc_arr' => array(
		'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
		'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
		'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
		'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
		'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
		'ENSMUSG00000089425' => 'predicted gene, 26006',
		'ENSMUSG00000096444' => 'predicted gene, 26139',
		'ENSMUSG00000098059' => 'predicted gene, 27034'
	),
	'gene_name_arr' => array(
		'ENSG00000200037' => 'RNA5SP32',
		'ENSG00000212377' => 'SNORD37',
		'ENSG00000227952' => 'RPL18AP17',
		'ENSG00000232881' => 'RPS10P21',
		'ENSG00000251715' => 'SNORA68',
		'ENSMUSG00000089425' => 'Gm26006',
		'ENSMUSG00000096444' => 'Gm26139',
		'ENSMUSG00000098059' => 'Gm27034'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(),
	'column_titles' => array(
		(int) 0 => 'Region Sub-Accession',
		(int) 1 => 'Tax ID',
		(int) 2 => 'Position',
		(int) 3 => 'Region Length'
	),
	'geneviewer' => array(
		(int) 9606 => array(
			'version' => 'GRCh38',
			'coord_key' => 'Homo sapiens',
			'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCh38.2bit',
			'bwgURI' => '/static/files/GRCh38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 10090 => array(
			'version' => 'GRCm38',
			'coord_key' => 'Mus musculus',
			'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
			'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
			'desc' => 'Gene structures from GENCODE 19',
			'twoBitURI' => '/static/files/GRCm38.2bit',
			'bwgURI' => '/static/files/GRCm38.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		),
		(int) 7955 => array(
			'version' => 'Zv9',
			'coord_key' => 'Danio rerio',
			'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
			'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
			'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
			'twoBitURI' => '/static/files/Zv9.2bit',
			'bwgURI' => '/static/files/Zv9.77.bb',
			'stylesheet_uri' => '/static/files/gencode.xml',
			'collapseSuperGroups' => 'true',
			'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
		)
	),
	'transcript_count' => (int) 8,
	'longest_tissue_len' => (int) 0,
	'transcript_data' => array(
		'ENST00000363167' => array(
			'start' => '71978088',
			'end' => '71978206',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP32-201'
		),
		'ENST00000391075' => array(
			'start' => '72453902',
			'end' => '72453967',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORD37.1-202'
		),
		'ENST00000455326' => array(
			'start' => '72460132',
			'end' => '72460329',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPL18AP17-001'
		),
		'ENST00000430654' => array(
			'start' => '71913704',
			'end' => '71914178',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RPS10P21-001'
		),
		'ENST00000515906' => array(
			'start' => '72460519',
			'end' => '72460601',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'SNORA68.1-204'
		),
		'ENSMUST00000158800' => array(
			'start' => '98260745',
			'end' => '98260825',
			'transcript_biotype' => 'snoRNA',
			'transcript_name' => 'Gm26006-201'
		),
		'ENSMUST00000180098' => array(
			'start' => '98624190',
			'end' => '98624296',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm26139-201'
		),
		'ENSMUST00000182552' => array(
			'start' => '98714813',
			'end' => '98715752',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm27034-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array()
)
$region_arr = array()
$gene_desc_arr = array(
	'ENSG00000200037' => 'RNA, 5S ribosomal pseudogene 32',
	'ENSG00000212377' => 'Small nucleolar RNA SNORD37',
	'ENSG00000227952' => 'ribosomal protein L18a pseudogene 17',
	'ENSG00000232881' => 'ribosomal protein S10 pseudogene 21',
	'ENSG00000251715' => 'Small nucleolar RNA SNORA68',
	'ENSMUSG00000089425' => 'predicted gene, 26006',
	'ENSMUSG00000096444' => 'predicted gene, 26139',
	'ENSMUSG00000098059' => 'predicted gene, 27034'
)
$gene_name_arr = array(
	'ENSG00000200037' => 'RNA5SP32',
	'ENSG00000212377' => 'SNORD37',
	'ENSG00000227952' => 'RPL18AP17',
	'ENSG00000232881' => 'RPS10P21',
	'ENSG00000251715' => 'SNORA68',
	'ENSMUSG00000089425' => 'Gm26006',
	'ENSMUSG00000096444' => 'Gm26139',
	'ENSMUSG00000098059' => 'Gm27034'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0001',
			'tax_id' => '9606',
			'chromosome' => '13',
			'seq_start' => '71897133',
			'seq_end' => '72499738',
			'region_length' => '602605',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000959_0002',
			'tax_id' => '10090',
			'chromosome' => '14',
			'seq_start' => '98236184',
			'seq_end' => '98838781',
			'region_length' => '602597',
			'region_type' => 'VISTA',
			'el_id' => 'hs131'
		)
	)
)
$all_tissues = array()
$column_titles = array(
	(int) 0 => 'Region Sub-Accession',
	(int) 1 => 'Tax ID',
	(int) 2 => 'Position',
	(int) 3 => 'Region Length'
)
$geneviewer = array(
	(int) 9606 => array(
		'version' => 'GRCh38',
		'coord_key' => 'Homo sapiens',
		'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCh38.2bit',
		'bwgURI' => '/static/files/GRCh38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 10090 => array(
		'version' => 'GRCm38',
		'coord_key' => 'Mus musculus',
		'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
		'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
		'desc' => 'Gene structures from GENCODE 19',
		'twoBitURI' => '/static/files/GRCm38.2bit',
		'bwgURI' => '/static/files/GRCm38.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	),
	(int) 7955 => array(
		'version' => 'Zv9',
		'coord_key' => 'Danio rerio',
		'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
		'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
		'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
		'twoBitURI' => '/static/files/Zv9.2bit',
		'bwgURI' => '/static/files/Zv9.77.bb',
		'stylesheet_uri' => '/static/files/gencode.xml',
		'collapseSuperGroups' => 'true',
		'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
	)
)
$transcript_count = (int) 8
$longest_tissue_len = (int) 0
$transcript_data = array(
	'ENST00000363167' => array(
		'start' => '71978088',
		'end' => '71978206',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP32-201'
	),
	'ENST00000391075' => array(
		'start' => '72453902',
		'end' => '72453967',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORD37.1-202'
	),
	'ENST00000455326' => array(
		'start' => '72460132',
		'end' => '72460329',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPL18AP17-001'
	),
	'ENST00000430654' => array(
		'start' => '71913704',
		'end' => '71914178',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RPS10P21-001'
	),
	'ENST00000515906' => array(
		'start' => '72460519',
		'end' => '72460601',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'SNORA68.1-204'
	),
	'ENSMUST00000158800' => array(
		'start' => '98260745',
		'end' => '98260825',
		'transcript_biotype' => 'snoRNA',
		'transcript_name' => 'Gm26006-201'
	),
	'ENSMUST00000180098' => array(
		'start' => '98624190',
		'end' => '98624296',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm26139-201'
	),
	'ENSMUST00000182552' => array(
		'start' => '98714813',
		'end' => '98715752',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm27034-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array()
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000959_0002',
		'tax_id' => '10090',
		'chromosome' => '14',
		'seq_start' => '98236184',
		'seq_end' => '98838781',
		'region_length' => '602597',
		'region_type' => 'VISTA',
		'el_id' => 'hs131'
	)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

Source ID		Type	Tax ID	Position
hs131		VISTA	10090	14:98236184-98838781
Gene		Transcript	Position	Biotype

Genome

Exciting message

Genes

Connecting

Transcripts

Connecting

Expression Patterns

Heat Map

Heat Map (Expressed Only)

Numeric Values

C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Region Summary

Expression Patterns

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C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Region Summary

Homo sapiens Ensembl (GRCh38)

Mus musculus Ensembl (GRCm38)

Expression Patterns

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