Institute of Cardiovascular Regeneration Webtool Repository

Region Summary

Source ID	Type	Tax ID	Position
ENSG00000221910-ENSG00000279723	CGP	9606	7:143935166-143960924
Gene	Transcript	Position	Biotype
ENSG00000213215 (OR2F1) olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)	ENST00000392899 (OR2F1-201)	143959932-143961015	protein_coding
	ENST00000624504 (OR2F1-001)	143959927-143961015	polymorphic_pseudogene
ENSG00000243583 (RP4-669B10.3)	ENST00000466281 (RP4-669B10.3-001)	143954844-143959109	lincRNA
ENSG00000243583 (RP4-669B10.3)	ENST00000470988 (RP4-669B10.3-002)	143958963-143997312	lincRNA
ENSG00000279723 (OR2F1) olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)	ENST00000623829 (OR2F1-202)	143959971-143960924	protein_coding

CIL_00074M_0002 (Click to Hide/Show)

Notice (8): Undefined index: CIL_00074M_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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
		'ENSG00000243583' => null,
		'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSMUSG00000065034' => 'predicted gene, 22363',
		'ENSMUSG00000094192' => 'olfactory receptor 452',
		'ENSMUSG00000095236' => 'olfactory receptor 38',
		'ENSMUSG00000095831' => 'olfactory receptor 453'
	),
	'gene_name_arr' => array(
		'ENSG00000213215' => 'OR2F1',
		'ENSG00000221910' => 'OR2F2',
		'ENSG00000243583' => 'RP4-669B10.3',
		'ENSG00000279723' => 'OR2F1',
		'ENSMUSG00000065034' => 'Gm22363',
		'ENSMUSG00000094192' => 'Olfr452',
		'ENSMUSG00000095236' => 'Olfr38',
		'ENSMUSG00000095831' => 'Olfr453'
	),
	'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 => 'Adipose',
		(int) 1 => 'Adrenal',
		(int) 2 => 'Brain',
		(int) 3 => 'Breast',
		(int) 5 => 'Colon',
		(int) 6 => 'Kidney',
		(int) 7 => 'Liver',
		(int) 8 => 'Muscle',
		(int) 9 => 'Placenta',
		(int) 13 => '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) 11,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000392899' => array(
			'start' => '143959932',
			'end' => '143961015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-201'
		),
		'ENST00000624504' => array(
			'start' => '143959927',
			'end' => '143961015',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR2F1-001'
		),
		'ENST00000408955' => array(
			'start' => '143935166',
			'end' => '143936279',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F2-001'
		),
		'ENST00000466281' => array(
			'start' => '143954844',
			'end' => '143959109',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-001'
		),
		'ENST00000470988' => array(
			'start' => '143958963',
			'end' => '143997312',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-002'
		),
		'ENST00000623829' => array(
			'start' => '143959971',
			'end' => '143960924',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-202'
		),
		'ENSMUST00000083100' => array(
			'start' => '42775573',
			'end' => '42775680',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22363-201'
		),
		'ENSMUST00000075468' => array(
			'start' => '42790015',
			'end' => '42791063',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr452-001'
		),
		'ENSMUST00000074499' => array(
			'start' => '42762054',
			'end' => '42763007',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr38-201'
		),
		'ENSMUST00000053647' => array(
			'start' => '42744039',
			'end' => '42744992',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr453-201'
		)
	),
	'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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
	'ENSG00000243583' => null,
	'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSMUSG00000065034' => 'predicted gene, 22363',
	'ENSMUSG00000094192' => 'olfactory receptor 452',
	'ENSMUSG00000095236' => 'olfactory receptor 38',
	'ENSMUSG00000095831' => 'olfactory receptor 453'
)
$gene_name_arr = array(
	'ENSG00000213215' => 'OR2F1',
	'ENSG00000221910' => 'OR2F2',
	'ENSG00000243583' => 'RP4-669B10.3',
	'ENSG00000279723' => 'OR2F1',
	'ENSMUSG00000065034' => 'Gm22363',
	'ENSMUSG00000094192' => 'Olfr452',
	'ENSMUSG00000095236' => 'Olfr38',
	'ENSMUSG00000095831' => 'Olfr453'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0001',
			'tax_id' => '9606',
			'chromosome' => '7',
			'seq_start' => '143935166',
			'seq_end' => '143960924',
			'region_length' => '25758',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000221910-ENSG00000279723'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0002',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42762054',
			'seq_end' => '42791063',
			'region_length' => '29009',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0003',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42744039',
			'seq_end' => '42763007',
			'region_length' => '18968',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 1 => 'Adrenal',
	(int) 2 => 'Brain',
	(int) 3 => 'Breast',
	(int) 5 => 'Colon',
	(int) 6 => 'Kidney',
	(int) 7 => 'Liver',
	(int) 8 => 'Muscle',
	(int) 9 => 'Placenta',
	(int) 13 => '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) 11
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000392899' => array(
		'start' => '143959932',
		'end' => '143961015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-201'
	),
	'ENST00000624504' => array(
		'start' => '143959927',
		'end' => '143961015',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR2F1-001'
	),
	'ENST00000408955' => array(
		'start' => '143935166',
		'end' => '143936279',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F2-001'
	),
	'ENST00000466281' => array(
		'start' => '143954844',
		'end' => '143959109',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-001'
	),
	'ENST00000470988' => array(
		'start' => '143958963',
		'end' => '143997312',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-002'
	),
	'ENST00000623829' => array(
		'start' => '143959971',
		'end' => '143960924',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-202'
	),
	'ENSMUST00000083100' => array(
		'start' => '42775573',
		'end' => '42775680',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22363-201'
	),
	'ENSMUST00000075468' => array(
		'start' => '42790015',
		'end' => '42791063',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr452-001'
	),
	'ENSMUST00000074499' => array(
		'start' => '42762054',
		'end' => '42763007',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr38-201'
	),
	'ENSMUST00000053647' => array(
		'start' => '42744039',
		'end' => '42744992',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr453-201'
	)
)
$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_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00074M_0002',
		'tax_id' => '10090',
		'chromosome' => '6',
		'seq_start' => '42762054',
		'seq_end' => '42791063',
		'region_length' => '29009',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
	)
)
$gene_el = array(
	'ENST00000623829' => array(
		'Breast' => array(
			'average_FPKM' => '0.376',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.083',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279723'
$is_first = false
$tran_el = array(
	'Breast' => array(
		'average_FPKM' => '0.376',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.083',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623829'
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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
		'ENSG00000243583' => null,
		'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSMUSG00000065034' => 'predicted gene, 22363',
		'ENSMUSG00000094192' => 'olfactory receptor 452',
		'ENSMUSG00000095236' => 'olfactory receptor 38',
		'ENSMUSG00000095831' => 'olfactory receptor 453'
	),
	'gene_name_arr' => array(
		'ENSG00000213215' => 'OR2F1',
		'ENSG00000221910' => 'OR2F2',
		'ENSG00000243583' => 'RP4-669B10.3',
		'ENSG00000279723' => 'OR2F1',
		'ENSMUSG00000065034' => 'Gm22363',
		'ENSMUSG00000094192' => 'Olfr452',
		'ENSMUSG00000095236' => 'Olfr38',
		'ENSMUSG00000095831' => 'Olfr453'
	),
	'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 => 'Adipose',
		(int) 1 => 'Adrenal',
		(int) 2 => 'Brain',
		(int) 3 => 'Breast',
		(int) 5 => 'Colon',
		(int) 6 => 'Kidney',
		(int) 7 => 'Liver',
		(int) 8 => 'Muscle',
		(int) 9 => 'Placenta',
		(int) 13 => '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) 11,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000392899' => array(
			'start' => '143959932',
			'end' => '143961015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-201'
		),
		'ENST00000624504' => array(
			'start' => '143959927',
			'end' => '143961015',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR2F1-001'
		),
		'ENST00000408955' => array(
			'start' => '143935166',
			'end' => '143936279',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F2-001'
		),
		'ENST00000466281' => array(
			'start' => '143954844',
			'end' => '143959109',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-001'
		),
		'ENST00000470988' => array(
			'start' => '143958963',
			'end' => '143997312',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-002'
		),
		'ENST00000623829' => array(
			'start' => '143959971',
			'end' => '143960924',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-202'
		),
		'ENSMUST00000083100' => array(
			'start' => '42775573',
			'end' => '42775680',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22363-201'
		),
		'ENSMUST00000075468' => array(
			'start' => '42790015',
			'end' => '42791063',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr452-001'
		),
		'ENSMUST00000074499' => array(
			'start' => '42762054',
			'end' => '42763007',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr38-201'
		),
		'ENSMUST00000053647' => array(
			'start' => '42744039',
			'end' => '42744992',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr453-201'
		)
	),
	'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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
	'ENSG00000243583' => null,
	'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSMUSG00000065034' => 'predicted gene, 22363',
	'ENSMUSG00000094192' => 'olfactory receptor 452',
	'ENSMUSG00000095236' => 'olfactory receptor 38',
	'ENSMUSG00000095831' => 'olfactory receptor 453'
)
$gene_name_arr = array(
	'ENSG00000213215' => 'OR2F1',
	'ENSG00000221910' => 'OR2F2',
	'ENSG00000243583' => 'RP4-669B10.3',
	'ENSG00000279723' => 'OR2F1',
	'ENSMUSG00000065034' => 'Gm22363',
	'ENSMUSG00000094192' => 'Olfr452',
	'ENSMUSG00000095236' => 'Olfr38',
	'ENSMUSG00000095831' => 'Olfr453'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0001',
			'tax_id' => '9606',
			'chromosome' => '7',
			'seq_start' => '143935166',
			'seq_end' => '143960924',
			'region_length' => '25758',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000221910-ENSG00000279723'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0002',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42762054',
			'seq_end' => '42791063',
			'region_length' => '29009',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0003',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42744039',
			'seq_end' => '42763007',
			'region_length' => '18968',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 1 => 'Adrenal',
	(int) 2 => 'Brain',
	(int) 3 => 'Breast',
	(int) 5 => 'Colon',
	(int) 6 => 'Kidney',
	(int) 7 => 'Liver',
	(int) 8 => 'Muscle',
	(int) 9 => 'Placenta',
	(int) 13 => '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) 11
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000392899' => array(
		'start' => '143959932',
		'end' => '143961015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-201'
	),
	'ENST00000624504' => array(
		'start' => '143959927',
		'end' => '143961015',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR2F1-001'
	),
	'ENST00000408955' => array(
		'start' => '143935166',
		'end' => '143936279',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F2-001'
	),
	'ENST00000466281' => array(
		'start' => '143954844',
		'end' => '143959109',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-001'
	),
	'ENST00000470988' => array(
		'start' => '143958963',
		'end' => '143997312',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-002'
	),
	'ENST00000623829' => array(
		'start' => '143959971',
		'end' => '143960924',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-202'
	),
	'ENSMUST00000083100' => array(
		'start' => '42775573',
		'end' => '42775680',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22363-201'
	),
	'ENSMUST00000075468' => array(
		'start' => '42790015',
		'end' => '42791063',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr452-001'
	),
	'ENSMUST00000074499' => array(
		'start' => '42762054',
		'end' => '42763007',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr38-201'
	),
	'ENSMUST00000053647' => array(
		'start' => '42744039',
		'end' => '42744992',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr453-201'
	)
)
$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_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00074M_0002',
		'tax_id' => '10090',
		'chromosome' => '6',
		'seq_start' => '42762054',
		'seq_end' => '42791063',
		'region_length' => '29009',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
	)
)
$gene_el = array(
	'ENST00000623829' => array(
		'Breast' => array(
			'average_FPKM' => '0.376',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.083',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279723'
$is_first = false
$tran_el = array(
	'Breast' => array(
		'average_FPKM' => '0.376',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.083',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623829'
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
ENSMUSG00000095236-ENSMUSG00000094192		CGP	10090	6:42762054-42791063
Gene		Transcript	Position	Biotype

CIL_00074M_0003 (Click to Hide/Show)

Notice (8): Undefined index: CIL_00074M_0003 [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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
		'ENSG00000243583' => null,
		'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSMUSG00000065034' => 'predicted gene, 22363',
		'ENSMUSG00000094192' => 'olfactory receptor 452',
		'ENSMUSG00000095236' => 'olfactory receptor 38',
		'ENSMUSG00000095831' => 'olfactory receptor 453'
	),
	'gene_name_arr' => array(
		'ENSG00000213215' => 'OR2F1',
		'ENSG00000221910' => 'OR2F2',
		'ENSG00000243583' => 'RP4-669B10.3',
		'ENSG00000279723' => 'OR2F1',
		'ENSMUSG00000065034' => 'Gm22363',
		'ENSMUSG00000094192' => 'Olfr452',
		'ENSMUSG00000095236' => 'Olfr38',
		'ENSMUSG00000095831' => 'Olfr453'
	),
	'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 => 'Adipose',
		(int) 1 => 'Adrenal',
		(int) 2 => 'Brain',
		(int) 3 => 'Breast',
		(int) 5 => 'Colon',
		(int) 6 => 'Kidney',
		(int) 7 => 'Liver',
		(int) 8 => 'Muscle',
		(int) 9 => 'Placenta',
		(int) 13 => '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) 11,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000392899' => array(
			'start' => '143959932',
			'end' => '143961015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-201'
		),
		'ENST00000624504' => array(
			'start' => '143959927',
			'end' => '143961015',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR2F1-001'
		),
		'ENST00000408955' => array(
			'start' => '143935166',
			'end' => '143936279',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F2-001'
		),
		'ENST00000466281' => array(
			'start' => '143954844',
			'end' => '143959109',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-001'
		),
		'ENST00000470988' => array(
			'start' => '143958963',
			'end' => '143997312',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-002'
		),
		'ENST00000623829' => array(
			'start' => '143959971',
			'end' => '143960924',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-202'
		),
		'ENSMUST00000083100' => array(
			'start' => '42775573',
			'end' => '42775680',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22363-201'
		),
		'ENSMUST00000075468' => array(
			'start' => '42790015',
			'end' => '42791063',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr452-001'
		),
		'ENSMUST00000074499' => array(
			'start' => '42762054',
			'end' => '42763007',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr38-201'
		),
		'ENSMUST00000053647' => array(
			'start' => '42744039',
			'end' => '42744992',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr453-201'
		)
	),
	'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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
	'ENSG00000243583' => null,
	'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSMUSG00000065034' => 'predicted gene, 22363',
	'ENSMUSG00000094192' => 'olfactory receptor 452',
	'ENSMUSG00000095236' => 'olfactory receptor 38',
	'ENSMUSG00000095831' => 'olfactory receptor 453'
)
$gene_name_arr = array(
	'ENSG00000213215' => 'OR2F1',
	'ENSG00000221910' => 'OR2F2',
	'ENSG00000243583' => 'RP4-669B10.3',
	'ENSG00000279723' => 'OR2F1',
	'ENSMUSG00000065034' => 'Gm22363',
	'ENSMUSG00000094192' => 'Olfr452',
	'ENSMUSG00000095236' => 'Olfr38',
	'ENSMUSG00000095831' => 'Olfr453'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0001',
			'tax_id' => '9606',
			'chromosome' => '7',
			'seq_start' => '143935166',
			'seq_end' => '143960924',
			'region_length' => '25758',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000221910-ENSG00000279723'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0002',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42762054',
			'seq_end' => '42791063',
			'region_length' => '29009',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0003',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42744039',
			'seq_end' => '42763007',
			'region_length' => '18968',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 1 => 'Adrenal',
	(int) 2 => 'Brain',
	(int) 3 => 'Breast',
	(int) 5 => 'Colon',
	(int) 6 => 'Kidney',
	(int) 7 => 'Liver',
	(int) 8 => 'Muscle',
	(int) 9 => 'Placenta',
	(int) 13 => '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) 11
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000392899' => array(
		'start' => '143959932',
		'end' => '143961015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-201'
	),
	'ENST00000624504' => array(
		'start' => '143959927',
		'end' => '143961015',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR2F1-001'
	),
	'ENST00000408955' => array(
		'start' => '143935166',
		'end' => '143936279',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F2-001'
	),
	'ENST00000466281' => array(
		'start' => '143954844',
		'end' => '143959109',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-001'
	),
	'ENST00000470988' => array(
		'start' => '143958963',
		'end' => '143997312',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-002'
	),
	'ENST00000623829' => array(
		'start' => '143959971',
		'end' => '143960924',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-202'
	),
	'ENSMUST00000083100' => array(
		'start' => '42775573',
		'end' => '42775680',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22363-201'
	),
	'ENSMUST00000075468' => array(
		'start' => '42790015',
		'end' => '42791063',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr452-001'
	),
	'ENSMUST00000074499' => array(
		'start' => '42762054',
		'end' => '42763007',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr38-201'
	),
	'ENSMUST00000053647' => array(
		'start' => '42744039',
		'end' => '42744992',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr453-201'
	)
)
$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_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00074M_0003',
		'tax_id' => '10090',
		'chromosome' => '6',
		'seq_start' => '42744039',
		'seq_end' => '42763007',
		'region_length' => '18968',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
	)
)
$gene_el = array(
	'ENST00000623829' => array(
		'Breast' => array(
			'average_FPKM' => '0.376',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.083',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279723'
$is_first = false
$tran_el = array(
	'Breast' => array(
		'average_FPKM' => '0.376',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.083',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623829'
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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
		'ENSG00000243583' => null,
		'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
		'ENSMUSG00000065034' => 'predicted gene, 22363',
		'ENSMUSG00000094192' => 'olfactory receptor 452',
		'ENSMUSG00000095236' => 'olfactory receptor 38',
		'ENSMUSG00000095831' => 'olfactory receptor 453'
	),
	'gene_name_arr' => array(
		'ENSG00000213215' => 'OR2F1',
		'ENSG00000221910' => 'OR2F2',
		'ENSG00000243583' => 'RP4-669B10.3',
		'ENSG00000279723' => 'OR2F1',
		'ENSMUSG00000065034' => 'Gm22363',
		'ENSMUSG00000094192' => 'Olfr452',
		'ENSMUSG00000095236' => 'Olfr38',
		'ENSMUSG00000095831' => 'Olfr453'
	),
	'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 => 'Adipose',
		(int) 1 => 'Adrenal',
		(int) 2 => 'Brain',
		(int) 3 => 'Breast',
		(int) 5 => 'Colon',
		(int) 6 => 'Kidney',
		(int) 7 => 'Liver',
		(int) 8 => 'Muscle',
		(int) 9 => 'Placenta',
		(int) 13 => '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) 11,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000392899' => array(
			'start' => '143959932',
			'end' => '143961015',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-201'
		),
		'ENST00000624504' => array(
			'start' => '143959927',
			'end' => '143961015',
			'transcript_biotype' => 'polymorphic_pseudogene',
			'transcript_name' => 'OR2F1-001'
		),
		'ENST00000408955' => array(
			'start' => '143935166',
			'end' => '143936279',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F2-001'
		),
		'ENST00000466281' => array(
			'start' => '143954844',
			'end' => '143959109',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-001'
		),
		'ENST00000470988' => array(
			'start' => '143958963',
			'end' => '143997312',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP4-669B10.3-002'
		),
		'ENST00000623829' => array(
			'start' => '143959971',
			'end' => '143960924',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'OR2F1-202'
		),
		'ENSMUST00000083100' => array(
			'start' => '42775573',
			'end' => '42775680',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22363-201'
		),
		'ENSMUST00000075468' => array(
			'start' => '42790015',
			'end' => '42791063',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr452-001'
		),
		'ENSMUST00000074499' => array(
			'start' => '42762054',
			'end' => '42763007',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr38-201'
		),
		'ENSMUST00000053647' => array(
			'start' => '42744039',
			'end' => '42744992',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Olfr453-201'
		)
	),
	'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_00074M_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000213215' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSG00000221910' => 'olfactory receptor, family 2, subfamily F, member 2',
	'ENSG00000243583' => null,
	'ENSG00000279723' => 'olfactory receptor, family 2, subfamily F, member 1 (gene/pseudogene)',
	'ENSMUSG00000065034' => 'predicted gene, 22363',
	'ENSMUSG00000094192' => 'olfactory receptor 452',
	'ENSMUSG00000095236' => 'olfactory receptor 38',
	'ENSMUSG00000095831' => 'olfactory receptor 453'
)
$gene_name_arr = array(
	'ENSG00000213215' => 'OR2F1',
	'ENSG00000221910' => 'OR2F2',
	'ENSG00000243583' => 'RP4-669B10.3',
	'ENSG00000279723' => 'OR2F1',
	'ENSMUSG00000065034' => 'Gm22363',
	'ENSMUSG00000094192' => 'Olfr452',
	'ENSMUSG00000095236' => 'Olfr38',
	'ENSMUSG00000095831' => 'Olfr453'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0001',
			'tax_id' => '9606',
			'chromosome' => '7',
			'seq_start' => '143935166',
			'seq_end' => '143960924',
			'region_length' => '25758',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000221910-ENSG00000279723'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0002',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42762054',
			'seq_end' => '42791063',
			'region_length' => '29009',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095236-ENSMUSG00000094192'
		)
	),
	(int) 2 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00074M_0003',
			'tax_id' => '10090',
			'chromosome' => '6',
			'seq_start' => '42744039',
			'seq_end' => '42763007',
			'region_length' => '18968',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 1 => 'Adrenal',
	(int) 2 => 'Brain',
	(int) 3 => 'Breast',
	(int) 5 => 'Colon',
	(int) 6 => 'Kidney',
	(int) 7 => 'Liver',
	(int) 8 => 'Muscle',
	(int) 9 => 'Placenta',
	(int) 13 => '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) 11
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000392899' => array(
		'start' => '143959932',
		'end' => '143961015',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-201'
	),
	'ENST00000624504' => array(
		'start' => '143959927',
		'end' => '143961015',
		'transcript_biotype' => 'polymorphic_pseudogene',
		'transcript_name' => 'OR2F1-001'
	),
	'ENST00000408955' => array(
		'start' => '143935166',
		'end' => '143936279',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F2-001'
	),
	'ENST00000466281' => array(
		'start' => '143954844',
		'end' => '143959109',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-001'
	),
	'ENST00000470988' => array(
		'start' => '143958963',
		'end' => '143997312',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP4-669B10.3-002'
	),
	'ENST00000623829' => array(
		'start' => '143959971',
		'end' => '143960924',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'OR2F1-202'
	),
	'ENSMUST00000083100' => array(
		'start' => '42775573',
		'end' => '42775680',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22363-201'
	),
	'ENSMUST00000075468' => array(
		'start' => '42790015',
		'end' => '42791063',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr452-001'
	),
	'ENSMUST00000074499' => array(
		'start' => '42762054',
		'end' => '42763007',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr38-201'
	),
	'ENSMUST00000053647' => array(
		'start' => '42744039',
		'end' => '42744992',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Olfr453-201'
	)
)
$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_00074M_0001' => array(
		'genes_in_region' => array(
			'ENSG00000213215' => array(
				[maximum depth reached]
			),
			'ENSG00000243583' => array(
				[maximum depth reached]
			),
			'ENSG00000279723' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Placenta',
			(int) 1 => 'Placenta',
			(int) 2 => 'Placenta',
			(int) 3 => 'Testis',
			(int) 4 => 'Adipose',
			(int) 5 => 'Adrenal',
			(int) 6 => 'Brain',
			(int) 7 => 'Breast',
			(int) 8 => 'Colon',
			(int) 9 => 'Kidney',
			(int) 10 => 'Liver',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Breast',
			(int) 15 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00074M_0003',
		'tax_id' => '10090',
		'chromosome' => '6',
		'seq_start' => '42744039',
		'seq_end' => '42763007',
		'region_length' => '18968',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000095831-ENSMUSG00000095236'
	)
)
$gene_el = array(
	'ENST00000623829' => array(
		'Breast' => array(
			'average_FPKM' => '0.376',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.083',
			'stddev_FPKM' => '0.00'
		)
	)
)
$gene_key = 'ENSG00000279723'
$is_first = false
$tran_el = array(
	'Breast' => array(
		'average_FPKM' => '0.376',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.083',
		'stddev_FPKM' => '0.00'
	)
)
$tran_key = 'ENST00000623829'
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
ENSMUSG00000095831-ENSMUSG00000095236		CGP	10090	6:42744039-42763007
Gene		Transcript	Position	Biotype

Expression Patterns

Heat Map

Heat Map (Expressed Only)

Numeric Values

Gene	Transcript	Adipose	Adrenal	Brain	Breast	Colon	Kidney	Liver	Muscle	Placenta	Testis
ENSG00000213215	ENST00000392899	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	0.065±0.04	N/A
ENSG00000213215	ENST00000624504	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	0.023±0.00	N/A
ENSG00000243583	ENST00000466281	N/A	N/A	N/A	N/A	N/A	N/A	N/A	N/A	0.237±0.00	0.172±0.05
ENSG00000243583	ENST00000470988	0.073±0.00	0.274±0.00	0.122±0.00	0.196±0.00	0.074±0.00	0.039±0.00	0.033±0.00	0.034±0.00	0.155±0.02	0.087±0.02
ENSG00000279723	ENST00000623829	N/A	N/A	N/A	0.376±0.00	N/A	N/A	N/A	N/A	N/A	0.083±0.00

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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