Institute of Cardiovascular Regeneration Webtool Repository

Source ID	Type	Tax ID	Position
hs941	VISTA	9606	16:5441186-6042172
Gene	Transcript	Position	Biotype
ENSG00000078328 (RBFOX1) RNA binding protein, fox-1 homolog (C. elegans) 1	ENST00000311745 (RBFOX1-001)	7332750-7712504	protein_coding
ENST00000340209 (RBFOX1-201)	7332750-7713338	protein_coding
ENST00000355637 (RBFOX1-002)	7332750-7712504	protein_coding
ENST00000422070 (RBFOX1-009)	6019703-7709781	protein_coding
ENST00000436368 (RBFOX1-011)	7332750-7710844	protein_coding
ENST00000535565 (RBFOX1-005)	6483179-7709776	protein_coding
ENST00000547338 (RBFOX1-008)	6773809-7710844	protein_coding
ENST00000547372 (RBFOX1-010)	6019593-7711458	protein_coding
ENST00000547427 (RBFOX1-012)	6483324-7328793	processed_transcript
ENST00000547605 (RBFOX1-014)	6019094-7653846	protein_coding
ENST00000548749 (RBFOX1-013)	6019703-6723887	processed_transcript
ENST00000550418 (RBFOX1-003)	6019131-7713338	protein_coding
ENST00000551752 (RBFOX1-007)	6483793-7653846	protein_coding
ENST00000552089 (RBFOX1-006)	6483386-7710763	protein_coding
ENST00000553186 (RBFOX1-004)	6019131-7710840	protein_coding
ENST00000564850 (RBFOX1-015)	7597217-7630626	retained_intron
ENST00000567470 (RBFOX1-018)	7653866-7710819	protein_coding
ENST00000569889 (RBFOX1-017)	7422778-7579785	processed_transcript
ENST00000570188 (RBFOX1-016)	7664764-7710844	retained_intron
ENST00000570626 (RBFOX1-019)	7510122-7595641	protein_coding
ENST00000620507 (RBFOX1-202)	7332750-7713338	protein_coding
ENSG00000260411 (RP11-420N3.2)	ENST00000585867 (RP11-420N3.2-002)	5239815-5600151	lincRNA
ENSG00000280000 (RP11-509E10.3)	ENST00000624136 (RP11-509E10.3-001)	6037210-6038977	TEC

Notice (8): Undefined index: CIL_000882_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_000882_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000078328' => 'RNA binding protein, fox-1 homolog (C. elegans) 1',
		'ENSG00000221257' => null,
		'ENSG00000260338' => null,
		'ENSG00000260411' => null,
		'ENSG00000270440' => null,
		'ENSG00000273648' => 'microRNA 8065',
		'ENSG00000280000' => null
	),
	'gene_name_arr' => array(
		'ENSG00000078328' => 'RBFOX1',
		'ENSG00000221257' => 'AC012175.1',
		'ENSG00000260338' => 'RP11-124K4.1',
		'ENSG00000260411' => 'RP11-420N3.2',
		'ENSG00000270440' => 'RP11-19H6.1',
		'ENSG00000273648' => 'MIR8065',
		'ENSG00000280000' => 'RP11-509E10.3'
	),
	'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 => 'Adipose',
		(int) 4 => 'Adrenal',
		(int) 6 => 'Bladder',
		(int) 9 => 'Brain',
		(int) 13 => 'Breast',
		(int) 19 => 'Colon',
		(int) 23 => 'Heart',
		(int) 29 => 'Kidney',
		(int) 33 => 'Liver',
		(int) 36 => 'Lung',
		(int) 37 => 'Muscle',
		(int) 41 => 'Ovary',
		(int) 44 => 'Placenta',
		(int) 49 => '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) 28,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000311745' => array(
			'start' => '7332750',
			'end' => '7712504',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-001'
		),
		'ENST00000340209' => array(
			'start' => '7332750',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-201'
		),
		'ENST00000355637' => array(
			'start' => '7332750',
			'end' => '7712504',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-002'
		),
		'ENST00000422070' => array(
			'start' => '6019703',
			'end' => '7709781',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-009'
		),
		'ENST00000436368' => array(
			'start' => '7332750',
			'end' => '7710844',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-011'
		),
		'ENST00000535565' => array(
			'start' => '6483179',
			'end' => '7709776',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-005'
		),
		'ENST00000547338' => array(
			'start' => '6773809',
			'end' => '7710844',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-008'
		),
		'ENST00000547372' => array(
			'start' => '6019593',
			'end' => '7711458',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-010'
		),
		'ENST00000547427' => array(
			'start' => '6483324',
			'end' => '7328793',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-012'
		),
		'ENST00000547605' => array(
			'start' => '6019094',
			'end' => '7653846',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-014'
		),
		'ENST00000548749' => array(
			'start' => '6019703',
			'end' => '6723887',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-013'
		),
		'ENST00000550418' => array(
			'start' => '6019131',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-003'
		),
		'ENST00000551752' => array(
			'start' => '6483793',
			'end' => '7653846',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-007'
		),
		'ENST00000552089' => array(
			'start' => '6483386',
			'end' => '7710763',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-006'
		),
		'ENST00000553186' => array(
			'start' => '6019131',
			'end' => '7710840',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-004'
		),
		'ENST00000564850' => array(
			'start' => '7597217',
			'end' => '7630626',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'RBFOX1-015'
		),
		'ENST00000567470' => array(
			'start' => '7653866',
			'end' => '7710819',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-018'
		),
		'ENST00000569889' => array(
			'start' => '7422778',
			'end' => '7579785',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-017'
		),
		'ENST00000570188' => array(
			'start' => '7664764',
			'end' => '7710844',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'RBFOX1-016'
		),
		'ENST00000570626' => array(
			'start' => '7510122',
			'end' => '7595641',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-019'
		),
		'ENST00000620507' => array(
			'start' => '7332750',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-202'
		),
		'ENST00000408330' => array(
			'start' => '5760687',
			'end' => '5760788',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC012175.1-201'
		),
		'ENST00000561572' => array(
			'start' => '5610300',
			'end' => '5611293',
			'transcript_biotype' => 'antisense',
			'transcript_name' => 'RP11-124K4.1-002'
		),
		'ENST00000566218' => array(
			'start' => '5601169',
			'end' => '5616196',
			'transcript_biotype' => 'antisense',
			'transcript_name' => 'RP11-124K4.1-001'
		),
		'ENST00000585867' => array(
			'start' => '5239815',
			'end' => '5600151',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP11-420N3.2-002'
		),
		'ENST00000603755' => array(
			'start' => '5838131',
			'end' => '5838661',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RP11-19H6.1-001'
		),
		'ENST00000620577' => array(
			'start' => '5632467',
			'end' => '5632566',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'MIR8065-201'
		),
		'ENST00000624136' => array(
			'start' => '6037210',
			'end' => '6038977',
			'transcript_biotype' => 'TEC',
			'transcript_name' => 'RP11-509E10.3-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array(
		'CIL_000882_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000882_0001' => array(
		'genes_in_region' => array(
			'ENSG00000078328' => array(
				[maximum depth reached]
			),
			'ENSG00000260411' => array(
				[maximum depth reached]
			),
			'ENSG00000280000' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Brain',
			(int) 3 => 'Colon',
			(int) 4 => 'Heart',
			(int) 5 => 'Kidney',
			(int) 6 => 'Liver',
			(int) 7 => 'Ovary',
			(int) 8 => 'Testis',
			(int) 9 => 'Breast',
			(int) 10 => 'Heart',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Breast',
			(int) 14 => 'Heart',
			(int) 15 => 'Muscle',
			(int) 16 => 'Testis',
			(int) 17 => 'Breast',
			(int) 18 => 'Heart',
			(int) 19 => 'Muscle',
			(int) 20 => 'Adipose',
			(int) 21 => 'Placenta',
			(int) 22 => 'Bladder',
			(int) 23 => 'Brain',
			(int) 24 => 'Placenta',
			(int) 25 => 'Testis',
			(int) 26 => 'Placenta',
			(int) 27 => 'Breast',
			(int) 28 => 'Colon',
			(int) 29 => 'Kidney',
			(int) 30 => 'Placenta',
			(int) 31 => 'Bladder',
			(int) 32 => 'Brain',
			(int) 33 => 'Heart',
			(int) 34 => 'Testis',
			(int) 35 => 'Adipose',
			(int) 36 => 'Adrenal',
			(int) 37 => 'Breast',
			(int) 38 => 'Colon',
			(int) 39 => 'Kidney',
			(int) 40 => 'Liver',
			(int) 41 => 'Ovary',
			(int) 42 => 'Testis',
			(int) 43 => 'Adipose',
			(int) 44 => 'Adrenal',
			(int) 45 => 'Brain',
			(int) 46 => 'Breast',
			(int) 47 => 'Colon',
			(int) 48 => 'Heart',
			(int) 49 => 'Kidney',
			(int) 50 => 'Liver',
			(int) 51 => 'Lung',
			(int) 52 => 'Muscle',
			(int) 53 => 'Ovary',
			(int) 54 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000078328' => 'RNA binding protein, fox-1 homolog (C. elegans) 1',
	'ENSG00000221257' => null,
	'ENSG00000260338' => null,
	'ENSG00000260411' => null,
	'ENSG00000270440' => null,
	'ENSG00000273648' => 'microRNA 8065',
	'ENSG00000280000' => null
)
$gene_name_arr = array(
	'ENSG00000078328' => 'RBFOX1',
	'ENSG00000221257' => 'AC012175.1',
	'ENSG00000260338' => 'RP11-124K4.1',
	'ENSG00000260411' => 'RP11-420N3.2',
	'ENSG00000270440' => 'RP11-19H6.1',
	'ENSG00000273648' => 'MIR8065',
	'ENSG00000280000' => 'RP11-509E10.3'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000882_0001',
			'tax_id' => '9606',
			'chromosome' => '16',
			'seq_start' => '5441186',
			'seq_end' => '6042172',
			'region_length' => '600986',
			'region_type' => 'VISTA',
			'el_id' => 'hs941'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000882_0002',
			'tax_id' => '10090',
			'chromosome' => '16',
			'seq_start' => '5363673',
			'seq_end' => '5964669',
			'region_length' => '600996',
			'region_type' => 'VISTA',
			'el_id' => 'hs941'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 4 => 'Adrenal',
	(int) 6 => 'Bladder',
	(int) 9 => 'Brain',
	(int) 13 => 'Breast',
	(int) 19 => 'Colon',
	(int) 23 => 'Heart',
	(int) 29 => 'Kidney',
	(int) 33 => 'Liver',
	(int) 36 => 'Lung',
	(int) 37 => 'Muscle',
	(int) 41 => 'Ovary',
	(int) 44 => 'Placenta',
	(int) 49 => '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) 28
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000311745' => array(
		'start' => '7332750',
		'end' => '7712504',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-001'
	),
	'ENST00000340209' => array(
		'start' => '7332750',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-201'
	),
	'ENST00000355637' => array(
		'start' => '7332750',
		'end' => '7712504',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-002'
	),
	'ENST00000422070' => array(
		'start' => '6019703',
		'end' => '7709781',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-009'
	),
	'ENST00000436368' => array(
		'start' => '7332750',
		'end' => '7710844',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-011'
	),
	'ENST00000535565' => array(
		'start' => '6483179',
		'end' => '7709776',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-005'
	),
	'ENST00000547338' => array(
		'start' => '6773809',
		'end' => '7710844',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-008'
	),
	'ENST00000547372' => array(
		'start' => '6019593',
		'end' => '7711458',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-010'
	),
	'ENST00000547427' => array(
		'start' => '6483324',
		'end' => '7328793',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-012'
	),
	'ENST00000547605' => array(
		'start' => '6019094',
		'end' => '7653846',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-014'
	),
	'ENST00000548749' => array(
		'start' => '6019703',
		'end' => '6723887',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-013'
	),
	'ENST00000550418' => array(
		'start' => '6019131',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-003'
	),
	'ENST00000551752' => array(
		'start' => '6483793',
		'end' => '7653846',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-007'
	),
	'ENST00000552089' => array(
		'start' => '6483386',
		'end' => '7710763',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-006'
	),
	'ENST00000553186' => array(
		'start' => '6019131',
		'end' => '7710840',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-004'
	),
	'ENST00000564850' => array(
		'start' => '7597217',
		'end' => '7630626',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'RBFOX1-015'
	),
	'ENST00000567470' => array(
		'start' => '7653866',
		'end' => '7710819',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-018'
	),
	'ENST00000569889' => array(
		'start' => '7422778',
		'end' => '7579785',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-017'
	),
	'ENST00000570188' => array(
		'start' => '7664764',
		'end' => '7710844',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'RBFOX1-016'
	),
	'ENST00000570626' => array(
		'start' => '7510122',
		'end' => '7595641',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-019'
	),
	'ENST00000620507' => array(
		'start' => '7332750',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-202'
	),
	'ENST00000408330' => array(
		'start' => '5760687',
		'end' => '5760788',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC012175.1-201'
	),
	'ENST00000561572' => array(
		'start' => '5610300',
		'end' => '5611293',
		'transcript_biotype' => 'antisense',
		'transcript_name' => 'RP11-124K4.1-002'
	),
	'ENST00000566218' => array(
		'start' => '5601169',
		'end' => '5616196',
		'transcript_biotype' => 'antisense',
		'transcript_name' => 'RP11-124K4.1-001'
	),
	'ENST00000585867' => array(
		'start' => '5239815',
		'end' => '5600151',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP11-420N3.2-002'
	),
	'ENST00000603755' => array(
		'start' => '5838131',
		'end' => '5838661',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RP11-19H6.1-001'
	),
	'ENST00000620577' => array(
		'start' => '5632467',
		'end' => '5632566',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'MIR8065-201'
	),
	'ENST00000624136' => array(
		'start' => '6037210',
		'end' => '6038977',
		'transcript_biotype' => 'TEC',
		'transcript_name' => 'RP11-509E10.3-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
	'CIL_000882_0001' => array(
		'genes_in_region' => array(
			'ENSG00000078328' => array(
				[maximum depth reached]
			),
			'ENSG00000260411' => array(
				[maximum depth reached]
			),
			'ENSG00000280000' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Brain',
			(int) 3 => 'Colon',
			(int) 4 => 'Heart',
			(int) 5 => 'Kidney',
			(int) 6 => 'Liver',
			(int) 7 => 'Ovary',
			(int) 8 => 'Testis',
			(int) 9 => 'Breast',
			(int) 10 => 'Heart',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Breast',
			(int) 14 => 'Heart',
			(int) 15 => 'Muscle',
			(int) 16 => 'Testis',
			(int) 17 => 'Breast',
			(int) 18 => 'Heart',
			(int) 19 => 'Muscle',
			(int) 20 => 'Adipose',
			(int) 21 => 'Placenta',
			(int) 22 => 'Bladder',
			(int) 23 => 'Brain',
			(int) 24 => 'Placenta',
			(int) 25 => 'Testis',
			(int) 26 => 'Placenta',
			(int) 27 => 'Breast',
			(int) 28 => 'Colon',
			(int) 29 => 'Kidney',
			(int) 30 => 'Placenta',
			(int) 31 => 'Bladder',
			(int) 32 => 'Brain',
			(int) 33 => 'Heart',
			(int) 34 => 'Testis',
			(int) 35 => 'Adipose',
			(int) 36 => 'Adrenal',
			(int) 37 => 'Breast',
			(int) 38 => 'Colon',
			(int) 39 => 'Kidney',
			(int) 40 => 'Liver',
			(int) 41 => 'Ovary',
			(int) 42 => 'Testis',
			(int) 43 => 'Adipose',
			(int) 44 => 'Adrenal',
			(int) 45 => 'Brain',
			(int) 46 => 'Breast',
			(int) 47 => 'Colon',
			(int) 48 => 'Heart',
			(int) 49 => 'Kidney',
			(int) 50 => 'Liver',
			(int) 51 => 'Lung',
			(int) 52 => 'Muscle',
			(int) 53 => 'Ovary',
			(int) 54 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000882_0002',
		'tax_id' => '10090',
		'chromosome' => '16',
		'seq_start' => '5363673',
		'seq_end' => '5964669',
		'region_length' => '600996',
		'region_type' => 'VISTA',
		'el_id' => 'hs941'
	)
)
$gene_el = array(
	'ENST00000624136' => array(
		'Adipose' => array(
			'average_FPKM' => '0.172',
			'stddev_FPKM' => '0.00'
		),
		'Adrenal' => array(
			'average_FPKM' => '0.191',
			'stddev_FPKM' => '0.00'
		),
		'Brain' => array(
			'average_FPKM' => '0.171',
			'stddev_FPKM' => '0.11'
		),
		'Breast' => array(
			'average_FPKM' => '0.080',
			'stddev_FPKM' => '0.00'
		),
		'Colon' => array(
			'average_FPKM' => '0.223',
			'stddev_FPKM' => '0.15'
		),
		'Heart' => array(
			'average_FPKM' => '0.048',
			'stddev_FPKM' => '0.00'
		),
		'Kidney' => array(
			'average_FPKM' => '0.126',
			'stddev_FPKM' => '0.00'
		),
		'Liver' => array(
			'average_FPKM' => '0.044',
			'stddev_FPKM' => '0.00'
		),
		'Lung' => array(
			'average_FPKM' => '0.087',
			'stddev_FPKM' => '0.00'
		),
		'Muscle' => array(
			'average_FPKM' => '0.005',
			'stddev_FPKM' => '0.00'
		),
		'Ovary' => array(
			'average_FPKM' => '0.037',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.089',
			'stddev_FPKM' => '0.04'
		)
	)
)
$gene_key = 'ENSG00000280000'
$is_first = false
$tran_el = array(
	'Adipose' => array(
		'average_FPKM' => '0.172',
		'stddev_FPKM' => '0.00'
	),
	'Adrenal' => array(
		'average_FPKM' => '0.191',
		'stddev_FPKM' => '0.00'
	),
	'Brain' => array(
		'average_FPKM' => '0.171',
		'stddev_FPKM' => '0.11'
	),
	'Breast' => array(
		'average_FPKM' => '0.080',
		'stddev_FPKM' => '0.00'
	),
	'Colon' => array(
		'average_FPKM' => '0.223',
		'stddev_FPKM' => '0.15'
	),
	'Heart' => array(
		'average_FPKM' => '0.048',
		'stddev_FPKM' => '0.00'
	),
	'Kidney' => array(
		'average_FPKM' => '0.126',
		'stddev_FPKM' => '0.00'
	),
	'Liver' => array(
		'average_FPKM' => '0.044',
		'stddev_FPKM' => '0.00'
	),
	'Lung' => array(
		'average_FPKM' => '0.087',
		'stddev_FPKM' => '0.00'
	),
	'Muscle' => array(
		'average_FPKM' => '0.005',
		'stddev_FPKM' => '0.00'
	),
	'Ovary' => array(
		'average_FPKM' => '0.037',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.089',
		'stddev_FPKM' => '0.04'
	)
)
$tran_key = 'ENST00000624136'
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_000882_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000078328' => 'RNA binding protein, fox-1 homolog (C. elegans) 1',
		'ENSG00000221257' => null,
		'ENSG00000260338' => null,
		'ENSG00000260411' => null,
		'ENSG00000270440' => null,
		'ENSG00000273648' => 'microRNA 8065',
		'ENSG00000280000' => null
	),
	'gene_name_arr' => array(
		'ENSG00000078328' => 'RBFOX1',
		'ENSG00000221257' => 'AC012175.1',
		'ENSG00000260338' => 'RP11-124K4.1',
		'ENSG00000260411' => 'RP11-420N3.2',
		'ENSG00000270440' => 'RP11-19H6.1',
		'ENSG00000273648' => 'MIR8065',
		'ENSG00000280000' => 'RP11-509E10.3'
	),
	'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 => 'Adipose',
		(int) 4 => 'Adrenal',
		(int) 6 => 'Bladder',
		(int) 9 => 'Brain',
		(int) 13 => 'Breast',
		(int) 19 => 'Colon',
		(int) 23 => 'Heart',
		(int) 29 => 'Kidney',
		(int) 33 => 'Liver',
		(int) 36 => 'Lung',
		(int) 37 => 'Muscle',
		(int) 41 => 'Ovary',
		(int) 44 => 'Placenta',
		(int) 49 => '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) 28,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000311745' => array(
			'start' => '7332750',
			'end' => '7712504',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-001'
		),
		'ENST00000340209' => array(
			'start' => '7332750',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-201'
		),
		'ENST00000355637' => array(
			'start' => '7332750',
			'end' => '7712504',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-002'
		),
		'ENST00000422070' => array(
			'start' => '6019703',
			'end' => '7709781',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-009'
		),
		'ENST00000436368' => array(
			'start' => '7332750',
			'end' => '7710844',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-011'
		),
		'ENST00000535565' => array(
			'start' => '6483179',
			'end' => '7709776',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-005'
		),
		'ENST00000547338' => array(
			'start' => '6773809',
			'end' => '7710844',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-008'
		),
		'ENST00000547372' => array(
			'start' => '6019593',
			'end' => '7711458',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-010'
		),
		'ENST00000547427' => array(
			'start' => '6483324',
			'end' => '7328793',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-012'
		),
		'ENST00000547605' => array(
			'start' => '6019094',
			'end' => '7653846',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-014'
		),
		'ENST00000548749' => array(
			'start' => '6019703',
			'end' => '6723887',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-013'
		),
		'ENST00000550418' => array(
			'start' => '6019131',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-003'
		),
		'ENST00000551752' => array(
			'start' => '6483793',
			'end' => '7653846',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-007'
		),
		'ENST00000552089' => array(
			'start' => '6483386',
			'end' => '7710763',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-006'
		),
		'ENST00000553186' => array(
			'start' => '6019131',
			'end' => '7710840',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-004'
		),
		'ENST00000564850' => array(
			'start' => '7597217',
			'end' => '7630626',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'RBFOX1-015'
		),
		'ENST00000567470' => array(
			'start' => '7653866',
			'end' => '7710819',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-018'
		),
		'ENST00000569889' => array(
			'start' => '7422778',
			'end' => '7579785',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'RBFOX1-017'
		),
		'ENST00000570188' => array(
			'start' => '7664764',
			'end' => '7710844',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'RBFOX1-016'
		),
		'ENST00000570626' => array(
			'start' => '7510122',
			'end' => '7595641',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-019'
		),
		'ENST00000620507' => array(
			'start' => '7332750',
			'end' => '7713338',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'RBFOX1-202'
		),
		'ENST00000408330' => array(
			'start' => '5760687',
			'end' => '5760788',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'AC012175.1-201'
		),
		'ENST00000561572' => array(
			'start' => '5610300',
			'end' => '5611293',
			'transcript_biotype' => 'antisense',
			'transcript_name' => 'RP11-124K4.1-002'
		),
		'ENST00000566218' => array(
			'start' => '5601169',
			'end' => '5616196',
			'transcript_biotype' => 'antisense',
			'transcript_name' => 'RP11-124K4.1-001'
		),
		'ENST00000585867' => array(
			'start' => '5239815',
			'end' => '5600151',
			'transcript_biotype' => 'lincRNA',
			'transcript_name' => 'RP11-420N3.2-002'
		),
		'ENST00000603755' => array(
			'start' => '5838131',
			'end' => '5838661',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'RP11-19H6.1-001'
		),
		'ENST00000620577' => array(
			'start' => '5632467',
			'end' => '5632566',
			'transcript_biotype' => 'miRNA',
			'transcript_name' => 'MIR8065-201'
		),
		'ENST00000624136' => array(
			'start' => '6037210',
			'end' => '6038977',
			'transcript_biotype' => 'TEC',
			'transcript_name' => 'RP11-509E10.3-001'
		)
	),
	'accession_map' => array(
		'ENST000' => '9606',
		'ENSMUST' => '10090',
		'ENSDART' => '7955',
		'ENSG000' => '9606',
		'ENSMUSG' => '10090',
		'ENSDARG' => '7955'
	),
	'sci_name_map' => array(
		(int) 9606 => 'Homo_sapiens',
		(int) 10090 => 'Mus_musculus',
		(int) 7955 => 'Danio_rerio'
	),
	'UCSC_links' => array(
		(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
		(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
		(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
	),
	'expressed_region_arr' => array(
		'CIL_000882_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000882_0001' => array(
		'genes_in_region' => array(
			'ENSG00000078328' => array(
				[maximum depth reached]
			),
			'ENSG00000260411' => array(
				[maximum depth reached]
			),
			'ENSG00000280000' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Brain',
			(int) 3 => 'Colon',
			(int) 4 => 'Heart',
			(int) 5 => 'Kidney',
			(int) 6 => 'Liver',
			(int) 7 => 'Ovary',
			(int) 8 => 'Testis',
			(int) 9 => 'Breast',
			(int) 10 => 'Heart',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Breast',
			(int) 14 => 'Heart',
			(int) 15 => 'Muscle',
			(int) 16 => 'Testis',
			(int) 17 => 'Breast',
			(int) 18 => 'Heart',
			(int) 19 => 'Muscle',
			(int) 20 => 'Adipose',
			(int) 21 => 'Placenta',
			(int) 22 => 'Bladder',
			(int) 23 => 'Brain',
			(int) 24 => 'Placenta',
			(int) 25 => 'Testis',
			(int) 26 => 'Placenta',
			(int) 27 => 'Breast',
			(int) 28 => 'Colon',
			(int) 29 => 'Kidney',
			(int) 30 => 'Placenta',
			(int) 31 => 'Bladder',
			(int) 32 => 'Brain',
			(int) 33 => 'Heart',
			(int) 34 => 'Testis',
			(int) 35 => 'Adipose',
			(int) 36 => 'Adrenal',
			(int) 37 => 'Breast',
			(int) 38 => 'Colon',
			(int) 39 => 'Kidney',
			(int) 40 => 'Liver',
			(int) 41 => 'Ovary',
			(int) 42 => 'Testis',
			(int) 43 => 'Adipose',
			(int) 44 => 'Adrenal',
			(int) 45 => 'Brain',
			(int) 46 => 'Breast',
			(int) 47 => 'Colon',
			(int) 48 => 'Heart',
			(int) 49 => 'Kidney',
			(int) 50 => 'Liver',
			(int) 51 => 'Lung',
			(int) 52 => 'Muscle',
			(int) 53 => 'Ovary',
			(int) 54 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000078328' => 'RNA binding protein, fox-1 homolog (C. elegans) 1',
	'ENSG00000221257' => null,
	'ENSG00000260338' => null,
	'ENSG00000260411' => null,
	'ENSG00000270440' => null,
	'ENSG00000273648' => 'microRNA 8065',
	'ENSG00000280000' => null
)
$gene_name_arr = array(
	'ENSG00000078328' => 'RBFOX1',
	'ENSG00000221257' => 'AC012175.1',
	'ENSG00000260338' => 'RP11-124K4.1',
	'ENSG00000260411' => 'RP11-420N3.2',
	'ENSG00000270440' => 'RP11-19H6.1',
	'ENSG00000273648' => 'MIR8065',
	'ENSG00000280000' => 'RP11-509E10.3'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000882_0001',
			'tax_id' => '9606',
			'chromosome' => '16',
			'seq_start' => '5441186',
			'seq_end' => '6042172',
			'region_length' => '600986',
			'region_type' => 'VISTA',
			'el_id' => 'hs941'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000882_0002',
			'tax_id' => '10090',
			'chromosome' => '16',
			'seq_start' => '5363673',
			'seq_end' => '5964669',
			'region_length' => '600996',
			'region_type' => 'VISTA',
			'el_id' => 'hs941'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 4 => 'Adrenal',
	(int) 6 => 'Bladder',
	(int) 9 => 'Brain',
	(int) 13 => 'Breast',
	(int) 19 => 'Colon',
	(int) 23 => 'Heart',
	(int) 29 => 'Kidney',
	(int) 33 => 'Liver',
	(int) 36 => 'Lung',
	(int) 37 => 'Muscle',
	(int) 41 => 'Ovary',
	(int) 44 => 'Placenta',
	(int) 49 => '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) 28
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000311745' => array(
		'start' => '7332750',
		'end' => '7712504',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-001'
	),
	'ENST00000340209' => array(
		'start' => '7332750',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-201'
	),
	'ENST00000355637' => array(
		'start' => '7332750',
		'end' => '7712504',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-002'
	),
	'ENST00000422070' => array(
		'start' => '6019703',
		'end' => '7709781',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-009'
	),
	'ENST00000436368' => array(
		'start' => '7332750',
		'end' => '7710844',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-011'
	),
	'ENST00000535565' => array(
		'start' => '6483179',
		'end' => '7709776',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-005'
	),
	'ENST00000547338' => array(
		'start' => '6773809',
		'end' => '7710844',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-008'
	),
	'ENST00000547372' => array(
		'start' => '6019593',
		'end' => '7711458',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-010'
	),
	'ENST00000547427' => array(
		'start' => '6483324',
		'end' => '7328793',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-012'
	),
	'ENST00000547605' => array(
		'start' => '6019094',
		'end' => '7653846',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-014'
	),
	'ENST00000548749' => array(
		'start' => '6019703',
		'end' => '6723887',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-013'
	),
	'ENST00000550418' => array(
		'start' => '6019131',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-003'
	),
	'ENST00000551752' => array(
		'start' => '6483793',
		'end' => '7653846',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-007'
	),
	'ENST00000552089' => array(
		'start' => '6483386',
		'end' => '7710763',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-006'
	),
	'ENST00000553186' => array(
		'start' => '6019131',
		'end' => '7710840',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-004'
	),
	'ENST00000564850' => array(
		'start' => '7597217',
		'end' => '7630626',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'RBFOX1-015'
	),
	'ENST00000567470' => array(
		'start' => '7653866',
		'end' => '7710819',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-018'
	),
	'ENST00000569889' => array(
		'start' => '7422778',
		'end' => '7579785',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'RBFOX1-017'
	),
	'ENST00000570188' => array(
		'start' => '7664764',
		'end' => '7710844',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'RBFOX1-016'
	),
	'ENST00000570626' => array(
		'start' => '7510122',
		'end' => '7595641',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-019'
	),
	'ENST00000620507' => array(
		'start' => '7332750',
		'end' => '7713338',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'RBFOX1-202'
	),
	'ENST00000408330' => array(
		'start' => '5760687',
		'end' => '5760788',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'AC012175.1-201'
	),
	'ENST00000561572' => array(
		'start' => '5610300',
		'end' => '5611293',
		'transcript_biotype' => 'antisense',
		'transcript_name' => 'RP11-124K4.1-002'
	),
	'ENST00000566218' => array(
		'start' => '5601169',
		'end' => '5616196',
		'transcript_biotype' => 'antisense',
		'transcript_name' => 'RP11-124K4.1-001'
	),
	'ENST00000585867' => array(
		'start' => '5239815',
		'end' => '5600151',
		'transcript_biotype' => 'lincRNA',
		'transcript_name' => 'RP11-420N3.2-002'
	),
	'ENST00000603755' => array(
		'start' => '5838131',
		'end' => '5838661',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'RP11-19H6.1-001'
	),
	'ENST00000620577' => array(
		'start' => '5632467',
		'end' => '5632566',
		'transcript_biotype' => 'miRNA',
		'transcript_name' => 'MIR8065-201'
	),
	'ENST00000624136' => array(
		'start' => '6037210',
		'end' => '6038977',
		'transcript_biotype' => 'TEC',
		'transcript_name' => 'RP11-509E10.3-001'
	)
)
$accession_map = array(
	'ENST000' => '9606',
	'ENSMUST' => '10090',
	'ENSDART' => '7955',
	'ENSG000' => '9606',
	'ENSMUSG' => '10090',
	'ENSDARG' => '7955'
)
$sci_name_map = array(
	(int) 9606 => 'Homo_sapiens',
	(int) 10090 => 'Mus_musculus',
	(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
	(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
	(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
	(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
	'CIL_000882_0001' => array(
		'genes_in_region' => array(
			'ENSG00000078328' => array(
				[maximum depth reached]
			),
			'ENSG00000260411' => array(
				[maximum depth reached]
			),
			'ENSG00000280000' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Brain',
			(int) 3 => 'Colon',
			(int) 4 => 'Heart',
			(int) 5 => 'Kidney',
			(int) 6 => 'Liver',
			(int) 7 => 'Ovary',
			(int) 8 => 'Testis',
			(int) 9 => 'Breast',
			(int) 10 => 'Heart',
			(int) 11 => 'Muscle',
			(int) 12 => 'Placenta',
			(int) 13 => 'Breast',
			(int) 14 => 'Heart',
			(int) 15 => 'Muscle',
			(int) 16 => 'Testis',
			(int) 17 => 'Breast',
			(int) 18 => 'Heart',
			(int) 19 => 'Muscle',
			(int) 20 => 'Adipose',
			(int) 21 => 'Placenta',
			(int) 22 => 'Bladder',
			(int) 23 => 'Brain',
			(int) 24 => 'Placenta',
			(int) 25 => 'Testis',
			(int) 26 => 'Placenta',
			(int) 27 => 'Breast',
			(int) 28 => 'Colon',
			(int) 29 => 'Kidney',
			(int) 30 => 'Placenta',
			(int) 31 => 'Bladder',
			(int) 32 => 'Brain',
			(int) 33 => 'Heart',
			(int) 34 => 'Testis',
			(int) 35 => 'Adipose',
			(int) 36 => 'Adrenal',
			(int) 37 => 'Breast',
			(int) 38 => 'Colon',
			(int) 39 => 'Kidney',
			(int) 40 => 'Liver',
			(int) 41 => 'Ovary',
			(int) 42 => 'Testis',
			(int) 43 => 'Adipose',
			(int) 44 => 'Adrenal',
			(int) 45 => 'Brain',
			(int) 46 => 'Breast',
			(int) 47 => 'Colon',
			(int) 48 => 'Heart',
			(int) 49 => 'Kidney',
			(int) 50 => 'Liver',
			(int) 51 => 'Lung',
			(int) 52 => 'Muscle',
			(int) 53 => 'Ovary',
			(int) 54 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000882_0002',
		'tax_id' => '10090',
		'chromosome' => '16',
		'seq_start' => '5363673',
		'seq_end' => '5964669',
		'region_length' => '600996',
		'region_type' => 'VISTA',
		'el_id' => 'hs941'
	)
)
$gene_el = array(
	'ENST00000624136' => array(
		'Adipose' => array(
			'average_FPKM' => '0.172',
			'stddev_FPKM' => '0.00'
		),
		'Adrenal' => array(
			'average_FPKM' => '0.191',
			'stddev_FPKM' => '0.00'
		),
		'Brain' => array(
			'average_FPKM' => '0.171',
			'stddev_FPKM' => '0.11'
		),
		'Breast' => array(
			'average_FPKM' => '0.080',
			'stddev_FPKM' => '0.00'
		),
		'Colon' => array(
			'average_FPKM' => '0.223',
			'stddev_FPKM' => '0.15'
		),
		'Heart' => array(
			'average_FPKM' => '0.048',
			'stddev_FPKM' => '0.00'
		),
		'Kidney' => array(
			'average_FPKM' => '0.126',
			'stddev_FPKM' => '0.00'
		),
		'Liver' => array(
			'average_FPKM' => '0.044',
			'stddev_FPKM' => '0.00'
		),
		'Lung' => array(
			'average_FPKM' => '0.087',
			'stddev_FPKM' => '0.00'
		),
		'Muscle' => array(
			'average_FPKM' => '0.005',
			'stddev_FPKM' => '0.00'
		),
		'Ovary' => array(
			'average_FPKM' => '0.037',
			'stddev_FPKM' => '0.00'
		),
		'Testis' => array(
			'average_FPKM' => '0.089',
			'stddev_FPKM' => '0.04'
		)
	)
)
$gene_key = 'ENSG00000280000'
$is_first = false
$tran_el = array(
	'Adipose' => array(
		'average_FPKM' => '0.172',
		'stddev_FPKM' => '0.00'
	),
	'Adrenal' => array(
		'average_FPKM' => '0.191',
		'stddev_FPKM' => '0.00'
	),
	'Brain' => array(
		'average_FPKM' => '0.171',
		'stddev_FPKM' => '0.11'
	),
	'Breast' => array(
		'average_FPKM' => '0.080',
		'stddev_FPKM' => '0.00'
	),
	'Colon' => array(
		'average_FPKM' => '0.223',
		'stddev_FPKM' => '0.15'
	),
	'Heart' => array(
		'average_FPKM' => '0.048',
		'stddev_FPKM' => '0.00'
	),
	'Kidney' => array(
		'average_FPKM' => '0.126',
		'stddev_FPKM' => '0.00'
	),
	'Liver' => array(
		'average_FPKM' => '0.044',
		'stddev_FPKM' => '0.00'
	),
	'Lung' => array(
		'average_FPKM' => '0.087',
		'stddev_FPKM' => '0.00'
	),
	'Muscle' => array(
		'average_FPKM' => '0.005',
		'stddev_FPKM' => '0.00'
	),
	'Ovary' => array(
		'average_FPKM' => '0.037',
		'stddev_FPKM' => '0.00'
	),
	'Testis' => array(
		'average_FPKM' => '0.089',
		'stddev_FPKM' => '0.04'
	)
)
$tran_key = 'ENST00000624136'
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
hs941		VISTA	10090	16:5363673-5964669
Gene		Transcript	Position	Biotype

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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