Institute of Cardiovascular Regeneration Webtool Repository

CIL_0003FT_0001 (Click to Hide/Show)

Source ID	Type	Tax ID	Position
ENSG00000175619-ENSG00000279556	CGP	9606	11:48216792-48246015
Gene	Transcript	Position	Biotype
ENSG00000279556 (OR4X2) olfactory receptor, family 4, subfamily X, member 2	ENST00000623137 (OR4X2-202)	48245104-48246015	protein_coding

CIL_0003FT_0002 (Click to Hide/Show)

Notice (8): Undefined index: CIL_0003FT_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(
		'CIL_0003FT_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		),
		'CIL_0003FT_0003' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000172208' => 'olfactory receptor, family 4, subfamily X, member 2',
		'ENSG00000175619' => 'olfactory receptor, family 4, subfamily B, member 1',
		'ENSG00000255514' => 'olfactory receptor, family 4, subfamily B, member 2 pseudogene',
		'ENSG00000279556' => 'olfactory receptor, family 4, subfamily X, member 2',
		'ENSMUSG00000075061' => 'olfactory receptor 1272',
		'ENSMUSG00000080809' => 'olfactory receptor 1273, pseudogene',
		'ENSMUSG00000089859' => 'predicted gene 13769',
		'ENSMUSG00000075064' => 'olfactory receptor 1506',
		'ENSMUSG00000075065' => 'olfactory receptor 1270',
		'ENSMUSG00000080223' => 'predicted gene 13768'
	),
	'gene_name_arr' => array(
		'ENSG00000172208' => 'OR4X2',
		'ENSG00000175619' => 'OR4B1',
		'ENSG00000255514' => 'OR4B2P',
		'ENSG00000279556' => 'OR4X2',
		'ENSMUSG00000075061' => 'Olfr1272',
		'ENSMUSG00000080809' => 'Olfr1273-ps',
		'ENSMUSG00000089859' => 'Gm13769',
		'ENSMUSG00000075064' => 'Olfr1506',
		'ENSMUSG00000075065' => 'Olfr1270',
		'ENSMUSG00000080223' => 'Gm13768'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 2 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(
		(int) 0 => 'Brain',
		(int) 1 => 'Colon',
		(int) 2 => 'Heart',
		(int) 3 => 'Liver',
		(int) 4 => 'Lung',
		(int) 5 => 'Placenta',
		(int) 6 => 'Testis'
	),
	'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) 12,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000302329' => array(
			'start' => '48245056',
			'end' => '48246070',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4X2-201'
		),
		'ENST00000624868' => array(
			'start' => '48245056',
			'end' => '48246080',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR4X2-002'
		),
		'ENST00000309562' => array(
			'start' => '48216792',
			'end' => '48217762',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4B1-001'
		),
		'ENST00000527724' => array(
			'start' => '48227429',
			'end' => '48228310',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'OR4B2P-001'
		),
		'ENST00000623137' => array(
			'start' => '48245104',
			'end' => '48246015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4X2-202'
		),
		'ENSMUST00000099750' => array(
			'start' => '90281647',
			'end' => '90282573',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1272-001'
		),
		'ENSMUST00000117141' => array(
			'start' => '90295935',
			'end' => '90296859',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'Olfr1273-ps-001'
		),
		'ENSMUST00000077123' => array(
			'start' => '90324197',
			'end' => '90325126',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm13769-201'
		),
		'ENSMUST00000118332' => array(
			'start' => '90322222',
			'end' => '90325208',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm13769-001'
		),
		'ENSMUST00000111504' => array(
			'start' => '90221567',
			'end' => '90224471',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1506-001'
		),
		'ENSMUST00000099754' => array(
			'start' => '90149090',
			'end' => '90150004',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1270-001'
		),
		'ENSMUST00000116469' => array(
			'start' => '90174097',
			'end' => '90195152',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'Gm13768-001'
		)
	),
	'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(
		'CIL_0003FT_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		),
		'CIL_0003FT_0003' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_0003FT_0001' => array(
		'genes_in_region' => array(
			'ENSG00000279556' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Heart'
		)
	),
	'CIL_0003FT_0003' => array(
		'genes_in_region' => array(
			'ENSMUSG00000075065' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000080223' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Testis',
			(int) 1 => 'Brain',
			(int) 2 => 'Colon',
			(int) 3 => 'Liver',
			(int) 4 => 'Lung',
			(int) 5 => 'Placenta'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000172208' => 'olfactory receptor, family 4, subfamily X, member 2',
	'ENSG00000175619' => 'olfactory receptor, family 4, subfamily B, member 1',
	'ENSG00000255514' => 'olfactory receptor, family 4, subfamily B, member 2 pseudogene',
	'ENSG00000279556' => 'olfactory receptor, family 4, subfamily X, member 2',
	'ENSMUSG00000075061' => 'olfactory receptor 1272',
	'ENSMUSG00000080809' => 'olfactory receptor 1273, pseudogene',
	'ENSMUSG00000089859' => 'predicted gene 13769',
	'ENSMUSG00000075064' => 'olfactory receptor 1506',
	'ENSMUSG00000075065' => 'olfactory receptor 1270',
	'ENSMUSG00000080223' => 'predicted gene 13768'
)
$gene_name_arr = array(
	'ENSG00000172208' => 'OR4X2',
	'ENSG00000175619' => 'OR4B1',
	'ENSG00000255514' => 'OR4B2P',
	'ENSG00000279556' => 'OR4X2',
	'ENSMUSG00000075061' => 'Olfr1272',
	'ENSMUSG00000080809' => 'Olfr1273-ps',
	'ENSMUSG00000089859' => 'Gm13769',
	'ENSMUSG00000075064' => 'Olfr1506',
	'ENSMUSG00000075065' => 'Olfr1270',
	'ENSMUSG00000080223' => 'Gm13768'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0001',
			'tax_id' => '9606',
			'chromosome' => '11',
			'seq_start' => '48216792',
			'seq_end' => '48246015',
			'region_length' => '29223',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000175619-ENSG00000279556'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0002',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '90281647',
			'seq_end' => '90325208',
			'region_length' => '43561',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000075061-ENSMUSG00000089859'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0003',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '90149090',
			'seq_end' => '90224471',
			'region_length' => '75381',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000075065-ENSMUSG00000075064'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Brain',
	(int) 1 => 'Colon',
	(int) 2 => 'Heart',
	(int) 3 => 'Liver',
	(int) 4 => 'Lung',
	(int) 5 => 'Placenta',
	(int) 6 => 'Testis'
)
$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) 12
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000302329' => array(
		'start' => '48245056',
		'end' => '48246070',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4X2-201'
	),
	'ENST00000624868' => array(
		'start' => '48245056',
		'end' => '48246080',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR4X2-002'
	),
	'ENST00000309562' => array(
		'start' => '48216792',
		'end' => '48217762',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4B1-001'
	),
	'ENST00000527724' => array(
		'start' => '48227429',
		'end' => '48228310',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'OR4B2P-001'
	),
	'ENST00000623137' => array(
		'start' => '48245104',
		'end' => '48246015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4X2-202'
	),
	'ENSMUST00000099750' => array(
		'start' => '90281647',
		'end' => '90282573',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1272-001'
	),
	'ENSMUST00000117141' => array(
		'start' => '90295935',
		'end' => '90296859',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'Olfr1273-ps-001'
	),
	'ENSMUST00000077123' => array(
		'start' => '90324197',
		'end' => '90325126',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm13769-201'
	),
	'ENSMUST00000118332' => array(
		'start' => '90322222',
		'end' => '90325208',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm13769-001'
	),
	'ENSMUST00000111504' => array(
		'start' => '90221567',
		'end' => '90224471',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1506-001'
	),
	'ENSMUST00000099754' => array(
		'start' => '90149090',
		'end' => '90150004',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1270-001'
	),
	'ENSMUST00000116469' => array(
		'start' => '90174097',
		'end' => '90195152',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'Gm13768-001'
	)
)
$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(
	'CIL_0003FT_0001' => array(
		'genes_in_region' => array(
			'ENSG00000279556' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Heart'
		)
	),
	'CIL_0003FT_0003' => array(
		'genes_in_region' => array(
			'ENSMUSG00000075065' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000080223' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Testis',
			(int) 1 => 'Brain',
			(int) 2 => 'Colon',
			(int) 3 => 'Liver',
			(int) 4 => 'Lung',
			(int) 5 => 'Placenta'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_0003FT_0002',
		'tax_id' => '10090',
		'chromosome' => '2',
		'seq_start' => '90281647',
		'seq_end' => '90325208',
		'region_length' => '43561',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000075061-ENSMUSG00000089859'
	)
)
$gene_el = array(
	'ENST00000623137' => array(
		'Heart' => array(
			'average_FPKM' => '0.185',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279556'
$is_first = false
$tran_el = array(
	'Heart' => array(
		'average_FPKM' => '0.185',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623137'
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(
		'CIL_0003FT_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		),
		'CIL_0003FT_0003' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000172208' => 'olfactory receptor, family 4, subfamily X, member 2',
		'ENSG00000175619' => 'olfactory receptor, family 4, subfamily B, member 1',
		'ENSG00000255514' => 'olfactory receptor, family 4, subfamily B, member 2 pseudogene',
		'ENSG00000279556' => 'olfactory receptor, family 4, subfamily X, member 2',
		'ENSMUSG00000075061' => 'olfactory receptor 1272',
		'ENSMUSG00000080809' => 'olfactory receptor 1273, pseudogene',
		'ENSMUSG00000089859' => 'predicted gene 13769',
		'ENSMUSG00000075064' => 'olfactory receptor 1506',
		'ENSMUSG00000075065' => 'olfactory receptor 1270',
		'ENSMUSG00000080223' => 'predicted gene 13768'
	),
	'gene_name_arr' => array(
		'ENSG00000172208' => 'OR4X2',
		'ENSG00000175619' => 'OR4B1',
		'ENSG00000255514' => 'OR4B2P',
		'ENSG00000279556' => 'OR4X2',
		'ENSMUSG00000075061' => 'Olfr1272',
		'ENSMUSG00000080809' => 'Olfr1273-ps',
		'ENSMUSG00000089859' => 'Gm13769',
		'ENSMUSG00000075064' => 'Olfr1506',
		'ENSMUSG00000075065' => 'Olfr1270',
		'ENSMUSG00000080223' => 'Gm13768'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 2 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(
		(int) 0 => 'Brain',
		(int) 1 => 'Colon',
		(int) 2 => 'Heart',
		(int) 3 => 'Liver',
		(int) 4 => 'Lung',
		(int) 5 => 'Placenta',
		(int) 6 => 'Testis'
	),
	'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) 12,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000302329' => array(
			'start' => '48245056',
			'end' => '48246070',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4X2-201'
		),
		'ENST00000624868' => array(
			'start' => '48245056',
			'end' => '48246080',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR4X2-002'
		),
		'ENST00000309562' => array(
			'start' => '48216792',
			'end' => '48217762',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4B1-001'
		),
		'ENST00000527724' => array(
			'start' => '48227429',
			'end' => '48228310',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'OR4B2P-001'
		),
		'ENST00000623137' => array(
			'start' => '48245104',
			'end' => '48246015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR4X2-202'
		),
		'ENSMUST00000099750' => array(
			'start' => '90281647',
			'end' => '90282573',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1272-001'
		),
		'ENSMUST00000117141' => array(
			'start' => '90295935',
			'end' => '90296859',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'Olfr1273-ps-001'
		),
		'ENSMUST00000077123' => array(
			'start' => '90324197',
			'end' => '90325126',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm13769-201'
		),
		'ENSMUST00000118332' => array(
			'start' => '90322222',
			'end' => '90325208',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm13769-001'
		),
		'ENSMUST00000111504' => array(
			'start' => '90221567',
			'end' => '90224471',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1506-001'
		),
		'ENSMUST00000099754' => array(
			'start' => '90149090',
			'end' => '90150004',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr1270-001'
		),
		'ENSMUST00000116469' => array(
			'start' => '90174097',
			'end' => '90195152',
			'transcript_biotype' => 'unprocessed_pseudogene',
			'transcript_name' => 'Gm13768-001'
		)
	),
	'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(
		'CIL_0003FT_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		),
		'CIL_0003FT_0003' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_0003FT_0001' => array(
		'genes_in_region' => array(
			'ENSG00000279556' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Heart'
		)
	),
	'CIL_0003FT_0003' => array(
		'genes_in_region' => array(
			'ENSMUSG00000075065' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000080223' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Testis',
			(int) 1 => 'Brain',
			(int) 2 => 'Colon',
			(int) 3 => 'Liver',
			(int) 4 => 'Lung',
			(int) 5 => 'Placenta'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000172208' => 'olfactory receptor, family 4, subfamily X, member 2',
	'ENSG00000175619' => 'olfactory receptor, family 4, subfamily B, member 1',
	'ENSG00000255514' => 'olfactory receptor, family 4, subfamily B, member 2 pseudogene',
	'ENSG00000279556' => 'olfactory receptor, family 4, subfamily X, member 2',
	'ENSMUSG00000075061' => 'olfactory receptor 1272',
	'ENSMUSG00000080809' => 'olfactory receptor 1273, pseudogene',
	'ENSMUSG00000089859' => 'predicted gene 13769',
	'ENSMUSG00000075064' => 'olfactory receptor 1506',
	'ENSMUSG00000075065' => 'olfactory receptor 1270',
	'ENSMUSG00000080223' => 'predicted gene 13768'
)
$gene_name_arr = array(
	'ENSG00000172208' => 'OR4X2',
	'ENSG00000175619' => 'OR4B1',
	'ENSG00000255514' => 'OR4B2P',
	'ENSG00000279556' => 'OR4X2',
	'ENSMUSG00000075061' => 'Olfr1272',
	'ENSMUSG00000080809' => 'Olfr1273-ps',
	'ENSMUSG00000089859' => 'Gm13769',
	'ENSMUSG00000075064' => 'Olfr1506',
	'ENSMUSG00000075065' => 'Olfr1270',
	'ENSMUSG00000080223' => 'Gm13768'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0001',
			'tax_id' => '9606',
			'chromosome' => '11',
			'seq_start' => '48216792',
			'seq_end' => '48246015',
			'region_length' => '29223',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000175619-ENSG00000279556'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0002',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '90281647',
			'seq_end' => '90325208',
			'region_length' => '43561',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000075061-ENSMUSG00000089859'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_0003FT_0003',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '90149090',
			'seq_end' => '90224471',
			'region_length' => '75381',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000075065-ENSMUSG00000075064'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Brain',
	(int) 1 => 'Colon',
	(int) 2 => 'Heart',
	(int) 3 => 'Liver',
	(int) 4 => 'Lung',
	(int) 5 => 'Placenta',
	(int) 6 => 'Testis'
)
$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) 12
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000302329' => array(
		'start' => '48245056',
		'end' => '48246070',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4X2-201'
	),
	'ENST00000624868' => array(
		'start' => '48245056',
		'end' => '48246080',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR4X2-002'
	),
	'ENST00000309562' => array(
		'start' => '48216792',
		'end' => '48217762',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4B1-001'
	),
	'ENST00000527724' => array(
		'start' => '48227429',
		'end' => '48228310',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'OR4B2P-001'
	),
	'ENST00000623137' => array(
		'start' => '48245104',
		'end' => '48246015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR4X2-202'
	),
	'ENSMUST00000099750' => array(
		'start' => '90281647',
		'end' => '90282573',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1272-001'
	),
	'ENSMUST00000117141' => array(
		'start' => '90295935',
		'end' => '90296859',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'Olfr1273-ps-001'
	),
	'ENSMUST00000077123' => array(
		'start' => '90324197',
		'end' => '90325126',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm13769-201'
	),
	'ENSMUST00000118332' => array(
		'start' => '90322222',
		'end' => '90325208',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm13769-001'
	),
	'ENSMUST00000111504' => array(
		'start' => '90221567',
		'end' => '90224471',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1506-001'
	),
	'ENSMUST00000099754' => array(
		'start' => '90149090',
		'end' => '90150004',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr1270-001'
	),
	'ENSMUST00000116469' => array(
		'start' => '90174097',
		'end' => '90195152',
		'transcript_biotype' => 'unprocessed_pseudogene',
		'transcript_name' => 'Gm13768-001'
	)
)
$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(
	'CIL_0003FT_0001' => array(
		'genes_in_region' => array(
			'ENSG00000279556' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Heart'
		)
	),
	'CIL_0003FT_0003' => array(
		'genes_in_region' => array(
			'ENSMUSG00000075065' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000080223' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Testis',
			(int) 1 => 'Brain',
			(int) 2 => 'Colon',
			(int) 3 => 'Liver',
			(int) 4 => 'Lung',
			(int) 5 => 'Placenta'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_0003FT_0002',
		'tax_id' => '10090',
		'chromosome' => '2',
		'seq_start' => '90281647',
		'seq_end' => '90325208',
		'region_length' => '43561',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000075061-ENSMUSG00000089859'
	)
)
$gene_el = array(
	'ENST00000623137' => array(
		'Heart' => array(
			'average_FPKM' => '0.185',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279556'
$is_first = false
$tran_el = array(
	'Heart' => array(
		'average_FPKM' => '0.185',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623137'
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
ENSMUSG00000075061-ENSMUSG00000089859		CGP	10090	2:90281647-90325208
Gene		Transcript	Position	Biotype

CIL_0003FT_0003 (Click to Hide/Show)

Source ID	Type	Tax ID	Position
ENSMUSG00000075065-ENSMUSG00000075064	CGP	10090	2:90149090-90224471
Gene	Transcript	Position	Biotype
ENSMUSG00000075065 (Olfr1270) olfactory receptor 1270	ENSMUST00000099754 (Olfr1270-001)	90149090-90150004	protein_coding
ENSMUSG00000080223 (Gm13768) predicted gene 13768	ENSMUST00000116469 (Gm13768-001)	90174097-90195152	unprocessed_pseudogene

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)

Mus musculus Ensembl (GRCm38)

Expression Patterns

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