Institute of Cardiovascular Regeneration Webtool Repository

Notice (8): Undefined index: CIL_00087K_0001 [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(
		'CIL_00087K_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000200101' => 'RNA, U6 small nuclear 508, pseudogene',
		'ENSG00000233891' => null,
		'ENSG00000252455' => null,
		'ENSG00000252726' => 'RNA, 5S ribosomal pseudogene 94',
		'ENSG00000270447' => null,
		'ENSG00000275742' => null,
		'ENSMUSG00000073103' => 'predicted gene 10466',
		'ENSMUSG00000080631' => 'predicted gene, 25507',
		'ENSMUSG00000081767' => 'predicted gene 12067',
		'ENSMUSG00000086892' => 'RIKEN cDNA 4933430M04 gene',
		'ENSMUSG00000087085' => 'predicted gene 12068',
		'ENSMUSG00000087145' => 'predicted gene 12665',
		'ENSMUSG00000088502' => 'predicted gene, 22787'
	),
	'gene_name_arr' => array(
		'ENSG00000200101' => 'RNU6-508P',
		'ENSG00000233891' => 'AC007131.2',
		'ENSG00000252455' => 'AC007179.2',
		'ENSG00000252726' => 'RNA5SP94',
		'ENSG00000270447' => 'RP11-569H17.1',
		'ENSG00000275742' => 'AC007006.1',
		'ENSMUSG00000073103' => 'Gm10466',
		'ENSMUSG00000080631' => 'Gm25507',
		'ENSMUSG00000081767' => 'Gm12067',
		'ENSMUSG00000086892' => '4933430M04Rik',
		'ENSMUSG00000087085' => 'Gm12068',
		'ENSMUSG00000087145' => 'Gm12665',
		'ENSMUSG00000088502' => 'Gm22787'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(
		(int) 0 => 'Brain',
		(int) 5 => 'Breast',
		(int) 6 => 'Muscle',
		(int) 8 => 'Ovary',
		(int) 12 => 'Placenta',
		(int) 14 => '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) 20,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000363231' => array(
			'start' => '59647621',
			'end' => '59647723',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'RNU6-508P-201'
		),
		'ENST00000412409' => array(
			'start' => '59240942',
			'end' => '59733396',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-007'
		),
		'ENST00000434611' => array(
			'start' => '59295380',
			'end' => '59388159',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-005'
		),
		'ENST00000435557' => array(
			'start' => '59669216',
			'end' => '59733331',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-006'
		),
		'ENST00000440521' => array(
			'start' => '59238716',
			'end' => '59249567',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-003'
		),
		'ENST00000443306' => array(
			'start' => '59238716',
			'end' => '59249672',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-001'
		),
		'ENST00000444001' => array(
			'start' => '59238722',
			'end' => '59388365',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-004'
		),
		'ENST00000451416' => array(
			'start' => '59238714',
			'end' => '59249511',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-002'
		),
		'ENST00000516646' => array(
			'start' => '59532984',
			'end' => '59533075',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC007179.2-201'
		),
		'ENST00000516917' => array(
			'start' => '59694762',
			'end' => '59694869',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP94-201'
		),
		'ENST00000604976' => array(
			'start' => '59514890',
			'end' => '59515124',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RP11-569H17.1-001'
		),
		'ENST00000615857' => array(
			'start' => '59565835',
			'end' => '59565921',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC007006.1-201'
		),
		'ENSMUST00000101450' => array(
			'start' => '24721006',
			'end' => '24730722',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm10466-001'
		),
		'ENSMUST00000116981' => array(
			'start' => '24679568',
			'end' => '24679711',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'Gm25507-201'
		),
		'ENSMUST00000119755' => array(
			'start' => '24552438',
			'end' => '24553962',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm12067-001'
		),
		'ENSMUST00000152726' => array(
			'start' => '24481909',
			'end' => '24569952',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => '4933430M04Rik-001'
		),
		'ENSMUST00000153153' => array(
			'start' => '24426246',
			'end' => '24722646',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12068-001'
		),
		'ENSMUST00000126063' => array(
			'start' => '24903983',
			'end' => '24926058',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12665-001'
		),
		'ENSMUST00000130092' => array(
			'start' => '24903983',
			'end' => '24926050',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12665-002'
		),
		'ENSMUST00000157877' => array(
			'start' => '24553986',
			'end' => '24554058',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22787-201'
		)
	),
	'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_00087K_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00087K_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000073103' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000081767' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000086892' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087085' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087145' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Brain',
			(int) 1 => 'Ovary',
			(int) 2 => 'Placenta',
			(int) 3 => 'Brain',
			(int) 4 => 'Ovary',
			(int) 5 => 'Brain',
			(int) 6 => 'Breast',
			(int) 7 => 'Muscle',
			(int) 8 => 'Ovary',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Muscle',
			(int) 12 => 'Ovary',
			(int) 13 => 'Testis',
			(int) 14 => 'Testis',
			(int) 15 => 'Brain',
			(int) 16 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000200101' => 'RNA, U6 small nuclear 508, pseudogene',
	'ENSG00000233891' => null,
	'ENSG00000252455' => null,
	'ENSG00000252726' => 'RNA, 5S ribosomal pseudogene 94',
	'ENSG00000270447' => null,
	'ENSG00000275742' => null,
	'ENSMUSG00000073103' => 'predicted gene 10466',
	'ENSMUSG00000080631' => 'predicted gene, 25507',
	'ENSMUSG00000081767' => 'predicted gene 12067',
	'ENSMUSG00000086892' => 'RIKEN cDNA 4933430M04 gene',
	'ENSMUSG00000087085' => 'predicted gene 12068',
	'ENSMUSG00000087145' => 'predicted gene 12665',
	'ENSMUSG00000088502' => 'predicted gene, 22787'
)
$gene_name_arr = array(
	'ENSG00000200101' => 'RNU6-508P',
	'ENSG00000233891' => 'AC007131.2',
	'ENSG00000252455' => 'AC007179.2',
	'ENSG00000252726' => 'RNA5SP94',
	'ENSG00000270447' => 'RP11-569H17.1',
	'ENSG00000275742' => 'AC007006.1',
	'ENSMUSG00000073103' => 'Gm10466',
	'ENSMUSG00000080631' => 'Gm25507',
	'ENSMUSG00000081767' => 'Gm12067',
	'ENSMUSG00000086892' => '4933430M04Rik',
	'ENSMUSG00000087085' => 'Gm12068',
	'ENSMUSG00000087145' => 'Gm12665',
	'ENSMUSG00000088502' => 'Gm22787'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00087K_0001',
			'tax_id' => '9606',
			'chromosome' => '2',
			'seq_start' => '59471203',
			'seq_end' => '60072521',
			'region_length' => '601318',
			'region_type' => 'VISTA',
			'el_id' => 'hs1021'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00087K_0002',
			'tax_id' => '10090',
			'chromosome' => '11',
			'seq_start' => '24548028',
			'seq_end' => '25149346',
			'region_length' => '601318',
			'region_type' => 'VISTA',
			'el_id' => 'hs1021'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Brain',
	(int) 5 => 'Breast',
	(int) 6 => 'Muscle',
	(int) 8 => 'Ovary',
	(int) 12 => 'Placenta',
	(int) 14 => '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) 20
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000363231' => array(
		'start' => '59647621',
		'end' => '59647723',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'RNU6-508P-201'
	),
	'ENST00000412409' => array(
		'start' => '59240942',
		'end' => '59733396',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-007'
	),
	'ENST00000434611' => array(
		'start' => '59295380',
		'end' => '59388159',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-005'
	),
	'ENST00000435557' => array(
		'start' => '59669216',
		'end' => '59733331',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-006'
	),
	'ENST00000440521' => array(
		'start' => '59238716',
		'end' => '59249567',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-003'
	),
	'ENST00000443306' => array(
		'start' => '59238716',
		'end' => '59249672',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-001'
	),
	'ENST00000444001' => array(
		'start' => '59238722',
		'end' => '59388365',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-004'
	),
	'ENST00000451416' => array(
		'start' => '59238714',
		'end' => '59249511',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-002'
	),
	'ENST00000516646' => array(
		'start' => '59532984',
		'end' => '59533075',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC007179.2-201'
	),
	'ENST00000516917' => array(
		'start' => '59694762',
		'end' => '59694869',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP94-201'
	),
	'ENST00000604976' => array(
		'start' => '59514890',
		'end' => '59515124',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RP11-569H17.1-001'
	),
	'ENST00000615857' => array(
		'start' => '59565835',
		'end' => '59565921',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC007006.1-201'
	),
	'ENSMUST00000101450' => array(
		'start' => '24721006',
		'end' => '24730722',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm10466-001'
	),
	'ENSMUST00000116981' => array(
		'start' => '24679568',
		'end' => '24679711',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'Gm25507-201'
	),
	'ENSMUST00000119755' => array(
		'start' => '24552438',
		'end' => '24553962',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm12067-001'
	),
	'ENSMUST00000152726' => array(
		'start' => '24481909',
		'end' => '24569952',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => '4933430M04Rik-001'
	),
	'ENSMUST00000153153' => array(
		'start' => '24426246',
		'end' => '24722646',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12068-001'
	),
	'ENSMUST00000126063' => array(
		'start' => '24903983',
		'end' => '24926058',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12665-001'
	),
	'ENSMUST00000130092' => array(
		'start' => '24903983',
		'end' => '24926050',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12665-002'
	),
	'ENSMUST00000157877' => array(
		'start' => '24553986',
		'end' => '24554058',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22787-201'
	)
)
$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_00087K_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000073103' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000081767' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000086892' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087085' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087145' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Brain',
			(int) 1 => 'Ovary',
			(int) 2 => 'Placenta',
			(int) 3 => 'Brain',
			(int) 4 => 'Ovary',
			(int) 5 => 'Brain',
			(int) 6 => 'Breast',
			(int) 7 => 'Muscle',
			(int) 8 => 'Ovary',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Muscle',
			(int) 12 => 'Ovary',
			(int) 13 => 'Testis',
			(int) 14 => 'Testis',
			(int) 15 => 'Brain',
			(int) 16 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00087K_0001',
		'tax_id' => '9606',
		'chromosome' => '2',
		'seq_start' => '59471203',
		'seq_end' => '60072521',
		'region_length' => '601318',
		'region_type' => 'VISTA',
		'el_id' => 'hs1021'
	)
)
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_00087K_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000200101' => 'RNA, U6 small nuclear 508, pseudogene',
		'ENSG00000233891' => null,
		'ENSG00000252455' => null,
		'ENSG00000252726' => 'RNA, 5S ribosomal pseudogene 94',
		'ENSG00000270447' => null,
		'ENSG00000275742' => null,
		'ENSMUSG00000073103' => 'predicted gene 10466',
		'ENSMUSG00000080631' => 'predicted gene, 25507',
		'ENSMUSG00000081767' => 'predicted gene 12067',
		'ENSMUSG00000086892' => 'RIKEN cDNA 4933430M04 gene',
		'ENSMUSG00000087085' => 'predicted gene 12068',
		'ENSMUSG00000087145' => 'predicted gene 12665',
		'ENSMUSG00000088502' => 'predicted gene, 22787'
	),
	'gene_name_arr' => array(
		'ENSG00000200101' => 'RNU6-508P',
		'ENSG00000233891' => 'AC007131.2',
		'ENSG00000252455' => 'AC007179.2',
		'ENSG00000252726' => 'RNA5SP94',
		'ENSG00000270447' => 'RP11-569H17.1',
		'ENSG00000275742' => 'AC007006.1',
		'ENSMUSG00000073103' => 'Gm10466',
		'ENSMUSG00000080631' => 'Gm25507',
		'ENSMUSG00000081767' => 'Gm12067',
		'ENSMUSG00000086892' => '4933430M04Rik',
		'ENSMUSG00000087085' => 'Gm12068',
		'ENSMUSG00000087145' => 'Gm12665',
		'ENSMUSG00000088502' => 'Gm22787'
	),
	'accession_table' => array(
		(int) 0 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		),
		(int) 1 => array(
			'region_elements' => array(
				[maximum depth reached]
			)
		)
	),
	'all_tissues' => array(
		(int) 0 => 'Brain',
		(int) 5 => 'Breast',
		(int) 6 => 'Muscle',
		(int) 8 => 'Ovary',
		(int) 12 => 'Placenta',
		(int) 14 => '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) 20,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000363231' => array(
			'start' => '59647621',
			'end' => '59647723',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'RNU6-508P-201'
		),
		'ENST00000412409' => array(
			'start' => '59240942',
			'end' => '59733396',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-007'
		),
		'ENST00000434611' => array(
			'start' => '59295380',
			'end' => '59388159',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-005'
		),
		'ENST00000435557' => array(
			'start' => '59669216',
			'end' => '59733331',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-006'
		),
		'ENST00000440521' => array(
			'start' => '59238716',
			'end' => '59249567',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-003'
		),
		'ENST00000443306' => array(
			'start' => '59238716',
			'end' => '59249672',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-001'
		),
		'ENST00000444001' => array(
			'start' => '59238722',
			'end' => '59388365',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-004'
		),
		'ENST00000451416' => array(
			'start' => '59238714',
			'end' => '59249511',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'AC007131.2-002'
		),
		'ENST00000516646' => array(
			'start' => '59532984',
			'end' => '59533075',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC007179.2-201'
		),
		'ENST00000516917' => array(
			'start' => '59694762',
			'end' => '59694869',
			'transcript_biotype' => 'rRNA',
			'transcript_name' => 'RNA5SP94-201'
		),
		'ENST00000604976' => array(
			'start' => '59514890',
			'end' => '59515124',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RP11-569H17.1-001'
		),
		'ENST00000615857' => array(
			'start' => '59565835',
			'end' => '59565921',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC007006.1-201'
		),
		'ENSMUST00000101450' => array(
			'start' => '24721006',
			'end' => '24730722',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm10466-001'
		),
		'ENSMUST00000116981' => array(
			'start' => '24679568',
			'end' => '24679711',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'Gm25507-201'
		),
		'ENSMUST00000119755' => array(
			'start' => '24552438',
			'end' => '24553962',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Gm12067-001'
		),
		'ENSMUST00000152726' => array(
			'start' => '24481909',
			'end' => '24569952',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => '4933430M04Rik-001'
		),
		'ENSMUST00000153153' => array(
			'start' => '24426246',
			'end' => '24722646',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12068-001'
		),
		'ENSMUST00000126063' => array(
			'start' => '24903983',
			'end' => '24926058',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12665-001'
		),
		'ENSMUST00000130092' => array(
			'start' => '24903983',
			'end' => '24926050',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'Gm12665-002'
		),
		'ENSMUST00000157877' => array(
			'start' => '24553986',
			'end' => '24554058',
			'transcript_biotype' => 'snRNA',
			'transcript_name' => 'Gm22787-201'
		)
	),
	'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_00087K_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_00087K_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000073103' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000081767' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000086892' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087085' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087145' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Brain',
			(int) 1 => 'Ovary',
			(int) 2 => 'Placenta',
			(int) 3 => 'Brain',
			(int) 4 => 'Ovary',
			(int) 5 => 'Brain',
			(int) 6 => 'Breast',
			(int) 7 => 'Muscle',
			(int) 8 => 'Ovary',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Muscle',
			(int) 12 => 'Ovary',
			(int) 13 => 'Testis',
			(int) 14 => 'Testis',
			(int) 15 => 'Brain',
			(int) 16 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000200101' => 'RNA, U6 small nuclear 508, pseudogene',
	'ENSG00000233891' => null,
	'ENSG00000252455' => null,
	'ENSG00000252726' => 'RNA, 5S ribosomal pseudogene 94',
	'ENSG00000270447' => null,
	'ENSG00000275742' => null,
	'ENSMUSG00000073103' => 'predicted gene 10466',
	'ENSMUSG00000080631' => 'predicted gene, 25507',
	'ENSMUSG00000081767' => 'predicted gene 12067',
	'ENSMUSG00000086892' => 'RIKEN cDNA 4933430M04 gene',
	'ENSMUSG00000087085' => 'predicted gene 12068',
	'ENSMUSG00000087145' => 'predicted gene 12665',
	'ENSMUSG00000088502' => 'predicted gene, 22787'
)
$gene_name_arr = array(
	'ENSG00000200101' => 'RNU6-508P',
	'ENSG00000233891' => 'AC007131.2',
	'ENSG00000252455' => 'AC007179.2',
	'ENSG00000252726' => 'RNA5SP94',
	'ENSG00000270447' => 'RP11-569H17.1',
	'ENSG00000275742' => 'AC007006.1',
	'ENSMUSG00000073103' => 'Gm10466',
	'ENSMUSG00000080631' => 'Gm25507',
	'ENSMUSG00000081767' => 'Gm12067',
	'ENSMUSG00000086892' => '4933430M04Rik',
	'ENSMUSG00000087085' => 'Gm12068',
	'ENSMUSG00000087145' => 'Gm12665',
	'ENSMUSG00000088502' => 'Gm22787'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00087K_0001',
			'tax_id' => '9606',
			'chromosome' => '2',
			'seq_start' => '59471203',
			'seq_end' => '60072521',
			'region_length' => '601318',
			'region_type' => 'VISTA',
			'el_id' => 'hs1021'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_00087K_0002',
			'tax_id' => '10090',
			'chromosome' => '11',
			'seq_start' => '24548028',
			'seq_end' => '25149346',
			'region_length' => '601318',
			'region_type' => 'VISTA',
			'el_id' => 'hs1021'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Brain',
	(int) 5 => 'Breast',
	(int) 6 => 'Muscle',
	(int) 8 => 'Ovary',
	(int) 12 => 'Placenta',
	(int) 14 => '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) 20
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000363231' => array(
		'start' => '59647621',
		'end' => '59647723',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'RNU6-508P-201'
	),
	'ENST00000412409' => array(
		'start' => '59240942',
		'end' => '59733396',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-007'
	),
	'ENST00000434611' => array(
		'start' => '59295380',
		'end' => '59388159',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-005'
	),
	'ENST00000435557' => array(
		'start' => '59669216',
		'end' => '59733331',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-006'
	),
	'ENST00000440521' => array(
		'start' => '59238716',
		'end' => '59249567',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-003'
	),
	'ENST00000443306' => array(
		'start' => '59238716',
		'end' => '59249672',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-001'
	),
	'ENST00000444001' => array(
		'start' => '59238722',
		'end' => '59388365',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-004'
	),
	'ENST00000451416' => array(
		'start' => '59238714',
		'end' => '59249511',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'AC007131.2-002'
	),
	'ENST00000516646' => array(
		'start' => '59532984',
		'end' => '59533075',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC007179.2-201'
	),
	'ENST00000516917' => array(
		'start' => '59694762',
		'end' => '59694869',
		'transcript_biotype' => 'rRNA',
		'transcript_name' => 'RNA5SP94-201'
	),
	'ENST00000604976' => array(
		'start' => '59514890',
		'end' => '59515124',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RP11-569H17.1-001'
	),
	'ENST00000615857' => array(
		'start' => '59565835',
		'end' => '59565921',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC007006.1-201'
	),
	'ENSMUST00000101450' => array(
		'start' => '24721006',
		'end' => '24730722',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm10466-001'
	),
	'ENSMUST00000116981' => array(
		'start' => '24679568',
		'end' => '24679711',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'Gm25507-201'
	),
	'ENSMUST00000119755' => array(
		'start' => '24552438',
		'end' => '24553962',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Gm12067-001'
	),
	'ENSMUST00000152726' => array(
		'start' => '24481909',
		'end' => '24569952',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => '4933430M04Rik-001'
	),
	'ENSMUST00000153153' => array(
		'start' => '24426246',
		'end' => '24722646',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12068-001'
	),
	'ENSMUST00000126063' => array(
		'start' => '24903983',
		'end' => '24926058',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12665-001'
	),
	'ENSMUST00000130092' => array(
		'start' => '24903983',
		'end' => '24926050',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'Gm12665-002'
	),
	'ENSMUST00000157877' => array(
		'start' => '24553986',
		'end' => '24554058',
		'transcript_biotype' => 'snRNA',
		'transcript_name' => 'Gm22787-201'
	)
)
$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_00087K_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000073103' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000081767' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000086892' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087085' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000087145' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Brain',
			(int) 1 => 'Ovary',
			(int) 2 => 'Placenta',
			(int) 3 => 'Brain',
			(int) 4 => 'Ovary',
			(int) 5 => 'Brain',
			(int) 6 => 'Breast',
			(int) 7 => 'Muscle',
			(int) 8 => 'Ovary',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Muscle',
			(int) 12 => 'Ovary',
			(int) 13 => 'Testis',
			(int) 14 => 'Testis',
			(int) 15 => 'Brain',
			(int) 16 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_00087K_0001',
		'tax_id' => '9606',
		'chromosome' => '2',
		'seq_start' => '59471203',
		'seq_end' => '60072521',
		'region_length' => '601318',
		'region_type' => 'VISTA',
		'el_id' => 'hs1021'
	)
)
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
hs1021		VISTA	9606	2:59471203-60072521
Gene		Transcript	Position	Biotype

Source ID	Type	Tax ID	Position
hs1021	VISTA	10090	11:24548028-25149346
Gene	Transcript	Position	Biotype
ENSMUSG00000073103 (Gm10466) predicted gene 10466	ENSMUST00000101450 (Gm10466-001)	24721006-24730722	lincRNA
ENSMUSG00000081767 (Gm12067) predicted gene 12067	ENSMUST00000119755 (Gm12067-001)	24552438-24553962	processed_pseudogene
ENSMUSG00000086892 (4933430M04Rik) RIKEN cDNA 4933430M04 gene	ENSMUST00000152726 (4933430M04Rik-001)	24481909-24569952	lincRNA
ENSMUSG00000087085 (Gm12068) predicted gene 12068	ENSMUST00000153153 (Gm12068-001)	24426246-24722646	lincRNA
ENSMUSG00000087145 (Gm12665) predicted gene 12665	ENSMUST00000126063 (Gm12665-001)	24903983-24926058	lincRNA
ENSMUSG00000087145 (Gm12665) predicted gene 12665	ENSMUST00000130092 (Gm12665-002)	24903983-24926050	lincRNA

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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Region Summary

Expression Patterns

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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Region Summary

Homo sapiens Ensembl (GRCh38)

Mus musculus Ensembl (GRCm38)

Expression Patterns

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