Institute of Cardiovascular Regeneration Webtool Repository

Source ID	Type	Tax ID	Position
ENSG00000015413-ENSG00000131165	CGP	9606	16:89613308-89657845
Gene	Transcript	Position	Biotype
ENSG00000015413 (DPEP1) dipeptidase 1 (renal)	ENST00000261615 (DPEP1-001)	89630289-89638456	protein_coding
ENST00000393092 (DPEP1-002)	89620592-89638429	protein_coding
ENST00000421184 (DPEP1-201)	89613308-89638430	protein_coding
ENST00000561484 (DPEP1-006)	89626458-89636179	retained_intron
ENST00000564281 (DPEP1-003)	89613673-89638398	retained_intron
ENST00000564645 (DPEP1-007)	89637576-89638295	retained_intron
ENST00000565249 (DPEP1-004)	89613549-89637529	retained_intron
ENST00000568281 (DPEP1-008)	89616873-89636360	protein_coding
ENST00000570029 (DPEP1-005)	89613308-89636348	protein_coding
ENSG00000131165 (CHMP1A) charged multivesicular body protein 1A	ENST00000397901 (CHMP1A-001)	89644431-89657845	protein_coding
ENST00000535997 (CHMP1A-002)	89644463-89657709	protein_coding
ENST00000547614 (CHMP1A-010)	89647044-89657721	processed_transcript
ENST00000547687 (CHMP1A-004)	89644435-89646880	retained_intron
ENST00000548650 (CHMP1A-007)	89646955-89649539	retained_intron
ENST00000549139 (CHMP1A-008)	89645836-89649593	retained_intron
ENST00000549328 (CHMP1A-009)	89645955-89657721	nonsense_mediated_decay
ENST00000550102 (CHMP1A-011)	89645889-89657650	protein_coding
ENST00000550872 (CHMP1A-005)	89649179-89657697	retained_intron
ENST00000551981 (CHMP1A-006)	89646912-89657605	retained_intron
ENSG00000167523 (SPATA33) spermatogenesis associated 33	ENST00000301031 (SPATA33-001)	89657802-89671267	protein_coding
ENST00000457689 (SPATA33-003)	89657838-89670297	nonsense_mediated_decay
ENST00000564238 (SPATA33-004)	89657871-89661508	protein_coding
ENST00000565890 (SPATA33-002)	89657829-89671272	nonsense_mediated_decay
ENST00000566204 (SPATA33-006)	89657812-89669631	protein_coding
ENST00000566857 (SPATA33-008)	89660828-89661508	processed_transcript
ENST00000567827 (SPATA33-007)	89657861-89668044	nonsense_mediated_decay
ENST00000568929 (SPATA33-005)	89658102-89661483	protein_coding
ENST00000579310 (SPATA33-201)	89657804-89670456	protein_coding
ENST00000611218 (SPATA33-202)	89658047-89670456	protein_coding

Notice (8): Undefined index: CIL_000334_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_000334_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000015413' => 'dipeptidase 1 (renal)',
		'ENSG00000131165' => 'charged multivesicular body protein 1A',
		'ENSG00000167523' => 'spermatogenesis associated 33',
		'ENSMUSG00000000743' => 'charged multivesicular body protein 1A',
		'ENSMUSG00000019278' => 'dipeptidase 1 (renal)',
		'ENSMUSG00000069862' => 'ribosomal protein S12, pseudogene 9'
	),
	'gene_name_arr' => array(
		'ENSG00000015413' => 'DPEP1',
		'ENSG00000131165' => 'CHMP1A',
		'ENSG00000167523' => 'SPATA33',
		'ENSMUSG00000000743' => 'Chmp1a',
		'ENSMUSG00000019278' => 'Dpep1',
		'ENSMUSG00000069862' => 'Rps12-ps9'
	),
	'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) 3 => 'Adrenal',
		(int) 7 => 'Bladder',
		(int) 10 => 'Brain',
		(int) 13 => 'Breast',
		(int) 17 => 'Colon',
		(int) 21 => 'Heart',
		(int) 25 => 'Kidney',
		(int) 30 => 'Liver',
		(int) 35 => 'Lung',
		(int) 40 => 'Muscle',
		(int) 42 => 'Ovary',
		(int) 52 => 'Placenta',
		(int) 57 => '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) 34,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000261615' => array(
			'start' => '89630289',
			'end' => '89638456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-001'
		),
		'ENST00000393092' => array(
			'start' => '89620592',
			'end' => '89638429',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-002'
		),
		'ENST00000421184' => array(
			'start' => '89613308',
			'end' => '89638430',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-201'
		),
		'ENST00000561484' => array(
			'start' => '89626458',
			'end' => '89636179',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-006'
		),
		'ENST00000564281' => array(
			'start' => '89613673',
			'end' => '89638398',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-003'
		),
		'ENST00000564645' => array(
			'start' => '89637576',
			'end' => '89638295',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-007'
		),
		'ENST00000565249' => array(
			'start' => '89613549',
			'end' => '89637529',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-004'
		),
		'ENST00000568281' => array(
			'start' => '89616873',
			'end' => '89636360',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-008'
		),
		'ENST00000570029' => array(
			'start' => '89613308',
			'end' => '89636348',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-005'
		),
		'ENST00000397901' => array(
			'start' => '89644431',
			'end' => '89657845',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-001'
		),
		'ENST00000535997' => array(
			'start' => '89644463',
			'end' => '89657709',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-002'
		),
		'ENST00000547614' => array(
			'start' => '89647044',
			'end' => '89657721',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'CHMP1A-010'
		),
		'ENST00000547687' => array(
			'start' => '89644435',
			'end' => '89646880',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-004'
		),
		'ENST00000548650' => array(
			'start' => '89646955',
			'end' => '89649539',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-007'
		),
		'ENST00000549139' => array(
			'start' => '89645836',
			'end' => '89649593',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-008'
		),
		'ENST00000549328' => array(
			'start' => '89645955',
			'end' => '89657721',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'CHMP1A-009'
		),
		'ENST00000550102' => array(
			'start' => '89645889',
			'end' => '89657650',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-011'
		),
		'ENST00000550872' => array(
			'start' => '89649179',
			'end' => '89657697',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-005'
		),
		'ENST00000551981' => array(
			'start' => '89646912',
			'end' => '89657605',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-006'
		),
		'ENST00000301031' => array(
			'start' => '89657802',
			'end' => '89671267',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-001'
		),
		'ENST00000457689' => array(
			'start' => '89657838',
			'end' => '89670297',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-003'
		),
		'ENST00000564238' => array(
			'start' => '89657871',
			'end' => '89661508',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-004'
		),
		'ENST00000565890' => array(
			'start' => '89657829',
			'end' => '89671272',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-002'
		),
		'ENST00000566204' => array(
			'start' => '89657812',
			'end' => '89669631',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-006'
		),
		'ENST00000566857' => array(
			'start' => '89660828',
			'end' => '89661508',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'SPATA33-008'
		),
		'ENST00000567827' => array(
			'start' => '89657861',
			'end' => '89668044',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-007'
		),
		'ENST00000568929' => array(
			'start' => '89658102',
			'end' => '89661483',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-005'
		),
		'ENST00000579310' => array(
			'start' => '89657804',
			'end' => '89670456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-201'
		),
		'ENST00000611218' => array(
			'start' => '89658047',
			'end' => '89670456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-202'
		),
		'ENSMUST00000000759' => array(
			'start' => '123204264',
			'end' => '123212760',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Chmp1a-001'
		),
		'ENSMUST00000167655' => array(
			'start' => '123205605',
			'end' => '123209769',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Chmp1a-003'
		),
		'ENSMUST00000172336' => array(
			'start' => '123209587',
			'end' => '123212763',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Chmp1a-002'
		),
		'ENSMUST00000019422' => array(
			'start' => '123186235',
			'end' => '123201810',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Dpep1-201'
		),
		'ENSMUST00000139165' => array(
			'start' => '123206623',
			'end' => '123207021',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Rps12-ps9-001'
		)
	),
	'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_000334_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000334_0001' => array(
		'genes_in_region' => array(
			'ENSG00000015413' => array(
				[maximum depth reached]
			),
			'ENSG00000131165' => array(
				[maximum depth reached]
			),
			'ENSG00000167523' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Breast',
			(int) 3 => 'Kidney',
			(int) 4 => 'Liver',
			(int) 5 => 'Lung',
			(int) 6 => 'Ovary',
			(int) 7 => 'Testis',
			(int) 8 => 'Lung',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Breast',
			(int) 12 => 'Colon',
			(int) 13 => 'Ovary',
			(int) 14 => 'Testis',
			(int) 15 => 'Adrenal',
			(int) 16 => 'Colon',
			(int) 17 => 'Heart',
			(int) 18 => 'Kidney',
			(int) 19 => 'Liver',
			(int) 20 => 'Ovary',
			(int) 21 => 'Brain',
			(int) 22 => 'Breast',
			(int) 23 => 'Placenta',
			(int) 24 => 'Bladder',
			(int) 25 => 'Lung',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Adipose',
			(int) 29 => 'Adrenal',
			(int) 30 => 'Bladder',
			(int) 31 => 'Brain',
			(int) 32 => 'Breast',
			(int) 33 => 'Colon',
			(int) 34 => 'Heart',
			(int) 35 => 'Kidney',
			(int) 36 => 'Liver',
			(int) 37 => 'Lung',
			(int) 38 => 'Muscle',
			(int) 39 => 'Ovary',
			(int) 40 => 'Placenta',
			(int) 41 => 'Testis',
			(int) 42 => 'Adipose',
			(int) 43 => 'Adrenal',
			(int) 44 => 'Brain',
			(int) 45 => 'Colon',
			(int) 46 => 'Heart',
			(int) 47 => 'Kidney',
			(int) 48 => 'Lung',
			(int) 49 => 'Muscle',
			(int) 50 => 'Ovary',
			(int) 51 => 'Placenta',
			(int) 52 => 'Testis',
			(int) 53 => 'Adrenal',
			(int) 54 => 'Liver',
			(int) 55 => 'Ovary',
			(int) 56 => 'Ovary',
			(int) 57 => 'Ovary',
			(int) 58 => 'Kidney',
			(int) 59 => 'Liver',
			(int) 60 => 'Testis',
			(int) 61 => 'Heart',
			(int) 62 => 'Ovary',
			(int) 63 => 'Testis',
			(int) 64 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000015413' => 'dipeptidase 1 (renal)',
	'ENSG00000131165' => 'charged multivesicular body protein 1A',
	'ENSG00000167523' => 'spermatogenesis associated 33',
	'ENSMUSG00000000743' => 'charged multivesicular body protein 1A',
	'ENSMUSG00000019278' => 'dipeptidase 1 (renal)',
	'ENSMUSG00000069862' => 'ribosomal protein S12, pseudogene 9'
)
$gene_name_arr = array(
	'ENSG00000015413' => 'DPEP1',
	'ENSG00000131165' => 'CHMP1A',
	'ENSG00000167523' => 'SPATA33',
	'ENSMUSG00000000743' => 'Chmp1a',
	'ENSMUSG00000019278' => 'Dpep1',
	'ENSMUSG00000069862' => 'Rps12-ps9'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000334_0001',
			'tax_id' => '9606',
			'chromosome' => '16',
			'seq_start' => '89613308',
			'seq_end' => '89657845',
			'region_length' => '44537',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000015413-ENSG00000131165'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000334_0002',
			'tax_id' => '10090',
			'chromosome' => '8',
			'seq_start' => '123186235',
			'seq_end' => '123212763',
			'region_length' => '26528',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000019278-ENSMUSG00000000743'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 3 => 'Adrenal',
	(int) 7 => 'Bladder',
	(int) 10 => 'Brain',
	(int) 13 => 'Breast',
	(int) 17 => 'Colon',
	(int) 21 => 'Heart',
	(int) 25 => 'Kidney',
	(int) 30 => 'Liver',
	(int) 35 => 'Lung',
	(int) 40 => 'Muscle',
	(int) 42 => 'Ovary',
	(int) 52 => 'Placenta',
	(int) 57 => '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) 34
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000261615' => array(
		'start' => '89630289',
		'end' => '89638456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-001'
	),
	'ENST00000393092' => array(
		'start' => '89620592',
		'end' => '89638429',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-002'
	),
	'ENST00000421184' => array(
		'start' => '89613308',
		'end' => '89638430',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-201'
	),
	'ENST00000561484' => array(
		'start' => '89626458',
		'end' => '89636179',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-006'
	),
	'ENST00000564281' => array(
		'start' => '89613673',
		'end' => '89638398',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-003'
	),
	'ENST00000564645' => array(
		'start' => '89637576',
		'end' => '89638295',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-007'
	),
	'ENST00000565249' => array(
		'start' => '89613549',
		'end' => '89637529',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-004'
	),
	'ENST00000568281' => array(
		'start' => '89616873',
		'end' => '89636360',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-008'
	),
	'ENST00000570029' => array(
		'start' => '89613308',
		'end' => '89636348',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-005'
	),
	'ENST00000397901' => array(
		'start' => '89644431',
		'end' => '89657845',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-001'
	),
	'ENST00000535997' => array(
		'start' => '89644463',
		'end' => '89657709',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-002'
	),
	'ENST00000547614' => array(
		'start' => '89647044',
		'end' => '89657721',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'CHMP1A-010'
	),
	'ENST00000547687' => array(
		'start' => '89644435',
		'end' => '89646880',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-004'
	),
	'ENST00000548650' => array(
		'start' => '89646955',
		'end' => '89649539',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-007'
	),
	'ENST00000549139' => array(
		'start' => '89645836',
		'end' => '89649593',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-008'
	),
	'ENST00000549328' => array(
		'start' => '89645955',
		'end' => '89657721',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'CHMP1A-009'
	),
	'ENST00000550102' => array(
		'start' => '89645889',
		'end' => '89657650',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-011'
	),
	'ENST00000550872' => array(
		'start' => '89649179',
		'end' => '89657697',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-005'
	),
	'ENST00000551981' => array(
		'start' => '89646912',
		'end' => '89657605',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-006'
	),
	'ENST00000301031' => array(
		'start' => '89657802',
		'end' => '89671267',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-001'
	),
	'ENST00000457689' => array(
		'start' => '89657838',
		'end' => '89670297',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-003'
	),
	'ENST00000564238' => array(
		'start' => '89657871',
		'end' => '89661508',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-004'
	),
	'ENST00000565890' => array(
		'start' => '89657829',
		'end' => '89671272',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-002'
	),
	'ENST00000566204' => array(
		'start' => '89657812',
		'end' => '89669631',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-006'
	),
	'ENST00000566857' => array(
		'start' => '89660828',
		'end' => '89661508',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'SPATA33-008'
	),
	'ENST00000567827' => array(
		'start' => '89657861',
		'end' => '89668044',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-007'
	),
	'ENST00000568929' => array(
		'start' => '89658102',
		'end' => '89661483',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-005'
	),
	'ENST00000579310' => array(
		'start' => '89657804',
		'end' => '89670456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-201'
	),
	'ENST00000611218' => array(
		'start' => '89658047',
		'end' => '89670456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-202'
	),
	'ENSMUST00000000759' => array(
		'start' => '123204264',
		'end' => '123212760',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Chmp1a-001'
	),
	'ENSMUST00000167655' => array(
		'start' => '123205605',
		'end' => '123209769',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Chmp1a-003'
	),
	'ENSMUST00000172336' => array(
		'start' => '123209587',
		'end' => '123212763',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Chmp1a-002'
	),
	'ENSMUST00000019422' => array(
		'start' => '123186235',
		'end' => '123201810',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Dpep1-201'
	),
	'ENSMUST00000139165' => array(
		'start' => '123206623',
		'end' => '123207021',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Rps12-ps9-001'
	)
)
$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_000334_0001' => array(
		'genes_in_region' => array(
			'ENSG00000015413' => array(
				[maximum depth reached]
			),
			'ENSG00000131165' => array(
				[maximum depth reached]
			),
			'ENSG00000167523' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Breast',
			(int) 3 => 'Kidney',
			(int) 4 => 'Liver',
			(int) 5 => 'Lung',
			(int) 6 => 'Ovary',
			(int) 7 => 'Testis',
			(int) 8 => 'Lung',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Breast',
			(int) 12 => 'Colon',
			(int) 13 => 'Ovary',
			(int) 14 => 'Testis',
			(int) 15 => 'Adrenal',
			(int) 16 => 'Colon',
			(int) 17 => 'Heart',
			(int) 18 => 'Kidney',
			(int) 19 => 'Liver',
			(int) 20 => 'Ovary',
			(int) 21 => 'Brain',
			(int) 22 => 'Breast',
			(int) 23 => 'Placenta',
			(int) 24 => 'Bladder',
			(int) 25 => 'Lung',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Adipose',
			(int) 29 => 'Adrenal',
			(int) 30 => 'Bladder',
			(int) 31 => 'Brain',
			(int) 32 => 'Breast',
			(int) 33 => 'Colon',
			(int) 34 => 'Heart',
			(int) 35 => 'Kidney',
			(int) 36 => 'Liver',
			(int) 37 => 'Lung',
			(int) 38 => 'Muscle',
			(int) 39 => 'Ovary',
			(int) 40 => 'Placenta',
			(int) 41 => 'Testis',
			(int) 42 => 'Adipose',
			(int) 43 => 'Adrenal',
			(int) 44 => 'Brain',
			(int) 45 => 'Colon',
			(int) 46 => 'Heart',
			(int) 47 => 'Kidney',
			(int) 48 => 'Lung',
			(int) 49 => 'Muscle',
			(int) 50 => 'Ovary',
			(int) 51 => 'Placenta',
			(int) 52 => 'Testis',
			(int) 53 => 'Adrenal',
			(int) 54 => 'Liver',
			(int) 55 => 'Ovary',
			(int) 56 => 'Ovary',
			(int) 57 => 'Ovary',
			(int) 58 => 'Kidney',
			(int) 59 => 'Liver',
			(int) 60 => 'Testis',
			(int) 61 => 'Heart',
			(int) 62 => 'Ovary',
			(int) 63 => 'Testis',
			(int) 64 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000334_0002',
		'tax_id' => '10090',
		'chromosome' => '8',
		'seq_start' => '123186235',
		'seq_end' => '123212763',
		'region_length' => '26528',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000019278-ENSMUSG00000000743'
	)
)
$gene_el = array(
	'ENST00000301031' => array(
		'Liver' => array(
			'average_FPKM' => '0.302',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000457689' => array(
		'Testis' => array(
			'average_FPKM' => '22.208',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000564238' => array(),
	'ENST00000565890' => array(
		'Heart' => array(
			'average_FPKM' => '0.068',
			'stddev_FPKM' => '0.00'
		),
		'Ovary' => array(
			'average_FPKM' => '0.502',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000566204' => array(
		'Testis' => array(
			'average_FPKM' => '47.538',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000566857' => array(),
	'ENST00000567827' => array(),
	'ENST00000568929' => array(),
	'ENST00000579310' => array(
		'Testis' => array(
			'average_FPKM' => '64.230',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000611218' => array()
)
$gene_key = 'ENSG00000167523'
$is_first = false
$tran_el = array()
$tran_key = 'ENST00000611218'
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_000334_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000015413' => 'dipeptidase 1 (renal)',
		'ENSG00000131165' => 'charged multivesicular body protein 1A',
		'ENSG00000167523' => 'spermatogenesis associated 33',
		'ENSMUSG00000000743' => 'charged multivesicular body protein 1A',
		'ENSMUSG00000019278' => 'dipeptidase 1 (renal)',
		'ENSMUSG00000069862' => 'ribosomal protein S12, pseudogene 9'
	),
	'gene_name_arr' => array(
		'ENSG00000015413' => 'DPEP1',
		'ENSG00000131165' => 'CHMP1A',
		'ENSG00000167523' => 'SPATA33',
		'ENSMUSG00000000743' => 'Chmp1a',
		'ENSMUSG00000019278' => 'Dpep1',
		'ENSMUSG00000069862' => 'Rps12-ps9'
	),
	'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) 3 => 'Adrenal',
		(int) 7 => 'Bladder',
		(int) 10 => 'Brain',
		(int) 13 => 'Breast',
		(int) 17 => 'Colon',
		(int) 21 => 'Heart',
		(int) 25 => 'Kidney',
		(int) 30 => 'Liver',
		(int) 35 => 'Lung',
		(int) 40 => 'Muscle',
		(int) 42 => 'Ovary',
		(int) 52 => 'Placenta',
		(int) 57 => '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) 34,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000261615' => array(
			'start' => '89630289',
			'end' => '89638456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-001'
		),
		'ENST00000393092' => array(
			'start' => '89620592',
			'end' => '89638429',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-002'
		),
		'ENST00000421184' => array(
			'start' => '89613308',
			'end' => '89638430',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-201'
		),
		'ENST00000561484' => array(
			'start' => '89626458',
			'end' => '89636179',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-006'
		),
		'ENST00000564281' => array(
			'start' => '89613673',
			'end' => '89638398',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-003'
		),
		'ENST00000564645' => array(
			'start' => '89637576',
			'end' => '89638295',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-007'
		),
		'ENST00000565249' => array(
			'start' => '89613549',
			'end' => '89637529',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'DPEP1-004'
		),
		'ENST00000568281' => array(
			'start' => '89616873',
			'end' => '89636360',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-008'
		),
		'ENST00000570029' => array(
			'start' => '89613308',
			'end' => '89636348',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'DPEP1-005'
		),
		'ENST00000397901' => array(
			'start' => '89644431',
			'end' => '89657845',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-001'
		),
		'ENST00000535997' => array(
			'start' => '89644463',
			'end' => '89657709',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-002'
		),
		'ENST00000547614' => array(
			'start' => '89647044',
			'end' => '89657721',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'CHMP1A-010'
		),
		'ENST00000547687' => array(
			'start' => '89644435',
			'end' => '89646880',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-004'
		),
		'ENST00000548650' => array(
			'start' => '89646955',
			'end' => '89649539',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-007'
		),
		'ENST00000549139' => array(
			'start' => '89645836',
			'end' => '89649593',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-008'
		),
		'ENST00000549328' => array(
			'start' => '89645955',
			'end' => '89657721',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'CHMP1A-009'
		),
		'ENST00000550102' => array(
			'start' => '89645889',
			'end' => '89657650',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'CHMP1A-011'
		),
		'ENST00000550872' => array(
			'start' => '89649179',
			'end' => '89657697',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-005'
		),
		'ENST00000551981' => array(
			'start' => '89646912',
			'end' => '89657605',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'CHMP1A-006'
		),
		'ENST00000301031' => array(
			'start' => '89657802',
			'end' => '89671267',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-001'
		),
		'ENST00000457689' => array(
			'start' => '89657838',
			'end' => '89670297',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-003'
		),
		'ENST00000564238' => array(
			'start' => '89657871',
			'end' => '89661508',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-004'
		),
		'ENST00000565890' => array(
			'start' => '89657829',
			'end' => '89671272',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-002'
		),
		'ENST00000566204' => array(
			'start' => '89657812',
			'end' => '89669631',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-006'
		),
		'ENST00000566857' => array(
			'start' => '89660828',
			'end' => '89661508',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'SPATA33-008'
		),
		'ENST00000567827' => array(
			'start' => '89657861',
			'end' => '89668044',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'SPATA33-007'
		),
		'ENST00000568929' => array(
			'start' => '89658102',
			'end' => '89661483',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-005'
		),
		'ENST00000579310' => array(
			'start' => '89657804',
			'end' => '89670456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-201'
		),
		'ENST00000611218' => array(
			'start' => '89658047',
			'end' => '89670456',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'SPATA33-202'
		),
		'ENSMUST00000000759' => array(
			'start' => '123204264',
			'end' => '123212760',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Chmp1a-001'
		),
		'ENSMUST00000167655' => array(
			'start' => '123205605',
			'end' => '123209769',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Chmp1a-003'
		),
		'ENSMUST00000172336' => array(
			'start' => '123209587',
			'end' => '123212763',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Chmp1a-002'
		),
		'ENSMUST00000019422' => array(
			'start' => '123186235',
			'end' => '123201810',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Dpep1-201'
		),
		'ENSMUST00000139165' => array(
			'start' => '123206623',
			'end' => '123207021',
			'transcript_biotype' => 'processed_pseudogene',
			'transcript_name' => 'Rps12-ps9-001'
		)
	),
	'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_000334_0001' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000334_0001' => array(
		'genes_in_region' => array(
			'ENSG00000015413' => array(
				[maximum depth reached]
			),
			'ENSG00000131165' => array(
				[maximum depth reached]
			),
			'ENSG00000167523' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Breast',
			(int) 3 => 'Kidney',
			(int) 4 => 'Liver',
			(int) 5 => 'Lung',
			(int) 6 => 'Ovary',
			(int) 7 => 'Testis',
			(int) 8 => 'Lung',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Breast',
			(int) 12 => 'Colon',
			(int) 13 => 'Ovary',
			(int) 14 => 'Testis',
			(int) 15 => 'Adrenal',
			(int) 16 => 'Colon',
			(int) 17 => 'Heart',
			(int) 18 => 'Kidney',
			(int) 19 => 'Liver',
			(int) 20 => 'Ovary',
			(int) 21 => 'Brain',
			(int) 22 => 'Breast',
			(int) 23 => 'Placenta',
			(int) 24 => 'Bladder',
			(int) 25 => 'Lung',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Adipose',
			(int) 29 => 'Adrenal',
			(int) 30 => 'Bladder',
			(int) 31 => 'Brain',
			(int) 32 => 'Breast',
			(int) 33 => 'Colon',
			(int) 34 => 'Heart',
			(int) 35 => 'Kidney',
			(int) 36 => 'Liver',
			(int) 37 => 'Lung',
			(int) 38 => 'Muscle',
			(int) 39 => 'Ovary',
			(int) 40 => 'Placenta',
			(int) 41 => 'Testis',
			(int) 42 => 'Adipose',
			(int) 43 => 'Adrenal',
			(int) 44 => 'Brain',
			(int) 45 => 'Colon',
			(int) 46 => 'Heart',
			(int) 47 => 'Kidney',
			(int) 48 => 'Lung',
			(int) 49 => 'Muscle',
			(int) 50 => 'Ovary',
			(int) 51 => 'Placenta',
			(int) 52 => 'Testis',
			(int) 53 => 'Adrenal',
			(int) 54 => 'Liver',
			(int) 55 => 'Ovary',
			(int) 56 => 'Ovary',
			(int) 57 => 'Ovary',
			(int) 58 => 'Kidney',
			(int) 59 => 'Liver',
			(int) 60 => 'Testis',
			(int) 61 => 'Heart',
			(int) 62 => 'Ovary',
			(int) 63 => 'Testis',
			(int) 64 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000015413' => 'dipeptidase 1 (renal)',
	'ENSG00000131165' => 'charged multivesicular body protein 1A',
	'ENSG00000167523' => 'spermatogenesis associated 33',
	'ENSMUSG00000000743' => 'charged multivesicular body protein 1A',
	'ENSMUSG00000019278' => 'dipeptidase 1 (renal)',
	'ENSMUSG00000069862' => 'ribosomal protein S12, pseudogene 9'
)
$gene_name_arr = array(
	'ENSG00000015413' => 'DPEP1',
	'ENSG00000131165' => 'CHMP1A',
	'ENSG00000167523' => 'SPATA33',
	'ENSMUSG00000000743' => 'Chmp1a',
	'ENSMUSG00000019278' => 'Dpep1',
	'ENSMUSG00000069862' => 'Rps12-ps9'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000334_0001',
			'tax_id' => '9606',
			'chromosome' => '16',
			'seq_start' => '89613308',
			'seq_end' => '89657845',
			'region_length' => '44537',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000015413-ENSG00000131165'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000334_0002',
			'tax_id' => '10090',
			'chromosome' => '8',
			'seq_start' => '123186235',
			'seq_end' => '123212763',
			'region_length' => '26528',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000019278-ENSMUSG00000000743'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 3 => 'Adrenal',
	(int) 7 => 'Bladder',
	(int) 10 => 'Brain',
	(int) 13 => 'Breast',
	(int) 17 => 'Colon',
	(int) 21 => 'Heart',
	(int) 25 => 'Kidney',
	(int) 30 => 'Liver',
	(int) 35 => 'Lung',
	(int) 40 => 'Muscle',
	(int) 42 => 'Ovary',
	(int) 52 => 'Placenta',
	(int) 57 => '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) 34
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000261615' => array(
		'start' => '89630289',
		'end' => '89638456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-001'
	),
	'ENST00000393092' => array(
		'start' => '89620592',
		'end' => '89638429',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-002'
	),
	'ENST00000421184' => array(
		'start' => '89613308',
		'end' => '89638430',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-201'
	),
	'ENST00000561484' => array(
		'start' => '89626458',
		'end' => '89636179',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-006'
	),
	'ENST00000564281' => array(
		'start' => '89613673',
		'end' => '89638398',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-003'
	),
	'ENST00000564645' => array(
		'start' => '89637576',
		'end' => '89638295',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-007'
	),
	'ENST00000565249' => array(
		'start' => '89613549',
		'end' => '89637529',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'DPEP1-004'
	),
	'ENST00000568281' => array(
		'start' => '89616873',
		'end' => '89636360',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-008'
	),
	'ENST00000570029' => array(
		'start' => '89613308',
		'end' => '89636348',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'DPEP1-005'
	),
	'ENST00000397901' => array(
		'start' => '89644431',
		'end' => '89657845',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-001'
	),
	'ENST00000535997' => array(
		'start' => '89644463',
		'end' => '89657709',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-002'
	),
	'ENST00000547614' => array(
		'start' => '89647044',
		'end' => '89657721',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'CHMP1A-010'
	),
	'ENST00000547687' => array(
		'start' => '89644435',
		'end' => '89646880',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-004'
	),
	'ENST00000548650' => array(
		'start' => '89646955',
		'end' => '89649539',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-007'
	),
	'ENST00000549139' => array(
		'start' => '89645836',
		'end' => '89649593',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-008'
	),
	'ENST00000549328' => array(
		'start' => '89645955',
		'end' => '89657721',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'CHMP1A-009'
	),
	'ENST00000550102' => array(
		'start' => '89645889',
		'end' => '89657650',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'CHMP1A-011'
	),
	'ENST00000550872' => array(
		'start' => '89649179',
		'end' => '89657697',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-005'
	),
	'ENST00000551981' => array(
		'start' => '89646912',
		'end' => '89657605',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'CHMP1A-006'
	),
	'ENST00000301031' => array(
		'start' => '89657802',
		'end' => '89671267',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-001'
	),
	'ENST00000457689' => array(
		'start' => '89657838',
		'end' => '89670297',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-003'
	),
	'ENST00000564238' => array(
		'start' => '89657871',
		'end' => '89661508',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-004'
	),
	'ENST00000565890' => array(
		'start' => '89657829',
		'end' => '89671272',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-002'
	),
	'ENST00000566204' => array(
		'start' => '89657812',
		'end' => '89669631',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-006'
	),
	'ENST00000566857' => array(
		'start' => '89660828',
		'end' => '89661508',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'SPATA33-008'
	),
	'ENST00000567827' => array(
		'start' => '89657861',
		'end' => '89668044',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'SPATA33-007'
	),
	'ENST00000568929' => array(
		'start' => '89658102',
		'end' => '89661483',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-005'
	),
	'ENST00000579310' => array(
		'start' => '89657804',
		'end' => '89670456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-201'
	),
	'ENST00000611218' => array(
		'start' => '89658047',
		'end' => '89670456',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'SPATA33-202'
	),
	'ENSMUST00000000759' => array(
		'start' => '123204264',
		'end' => '123212760',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Chmp1a-001'
	),
	'ENSMUST00000167655' => array(
		'start' => '123205605',
		'end' => '123209769',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Chmp1a-003'
	),
	'ENSMUST00000172336' => array(
		'start' => '123209587',
		'end' => '123212763',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Chmp1a-002'
	),
	'ENSMUST00000019422' => array(
		'start' => '123186235',
		'end' => '123201810',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Dpep1-201'
	),
	'ENSMUST00000139165' => array(
		'start' => '123206623',
		'end' => '123207021',
		'transcript_biotype' => 'processed_pseudogene',
		'transcript_name' => 'Rps12-ps9-001'
	)
)
$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_000334_0001' => array(
		'genes_in_region' => array(
			'ENSG00000015413' => array(
				[maximum depth reached]
			),
			'ENSG00000131165' => array(
				[maximum depth reached]
			),
			'ENSG00000167523' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Bladder',
			(int) 2 => 'Breast',
			(int) 3 => 'Kidney',
			(int) 4 => 'Liver',
			(int) 5 => 'Lung',
			(int) 6 => 'Ovary',
			(int) 7 => 'Testis',
			(int) 8 => 'Lung',
			(int) 9 => 'Placenta',
			(int) 10 => 'Testis',
			(int) 11 => 'Breast',
			(int) 12 => 'Colon',
			(int) 13 => 'Ovary',
			(int) 14 => 'Testis',
			(int) 15 => 'Adrenal',
			(int) 16 => 'Colon',
			(int) 17 => 'Heart',
			(int) 18 => 'Kidney',
			(int) 19 => 'Liver',
			(int) 20 => 'Ovary',
			(int) 21 => 'Brain',
			(int) 22 => 'Breast',
			(int) 23 => 'Placenta',
			(int) 24 => 'Bladder',
			(int) 25 => 'Lung',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Adipose',
			(int) 29 => 'Adrenal',
			(int) 30 => 'Bladder',
			(int) 31 => 'Brain',
			(int) 32 => 'Breast',
			(int) 33 => 'Colon',
			(int) 34 => 'Heart',
			(int) 35 => 'Kidney',
			(int) 36 => 'Liver',
			(int) 37 => 'Lung',
			(int) 38 => 'Muscle',
			(int) 39 => 'Ovary',
			(int) 40 => 'Placenta',
			(int) 41 => 'Testis',
			(int) 42 => 'Adipose',
			(int) 43 => 'Adrenal',
			(int) 44 => 'Brain',
			(int) 45 => 'Colon',
			(int) 46 => 'Heart',
			(int) 47 => 'Kidney',
			(int) 48 => 'Lung',
			(int) 49 => 'Muscle',
			(int) 50 => 'Ovary',
			(int) 51 => 'Placenta',
			(int) 52 => 'Testis',
			(int) 53 => 'Adrenal',
			(int) 54 => 'Liver',
			(int) 55 => 'Ovary',
			(int) 56 => 'Ovary',
			(int) 57 => 'Ovary',
			(int) 58 => 'Kidney',
			(int) 59 => 'Liver',
			(int) 60 => 'Testis',
			(int) 61 => 'Heart',
			(int) 62 => 'Ovary',
			(int) 63 => 'Testis',
			(int) 64 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000334_0002',
		'tax_id' => '10090',
		'chromosome' => '8',
		'seq_start' => '123186235',
		'seq_end' => '123212763',
		'region_length' => '26528',
		'region_type' => 'CGP',
		'el_id' => 'ENSMUSG00000019278-ENSMUSG00000000743'
	)
)
$gene_el = array(
	'ENST00000301031' => array(
		'Liver' => array(
			'average_FPKM' => '0.302',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000457689' => array(
		'Testis' => array(
			'average_FPKM' => '22.208',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000564238' => array(),
	'ENST00000565890' => array(
		'Heart' => array(
			'average_FPKM' => '0.068',
			'stddev_FPKM' => '0.00'
		),
		'Ovary' => array(
			'average_FPKM' => '0.502',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000566204' => array(
		'Testis' => array(
			'average_FPKM' => '47.538',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000566857' => array(),
	'ENST00000567827' => array(),
	'ENST00000568929' => array(),
	'ENST00000579310' => array(
		'Testis' => array(
			'average_FPKM' => '64.230',
			'stddev_FPKM' => '0.00'
		)
	),
	'ENST00000611218' => array()
)
$gene_key = 'ENSG00000167523'
$is_first = false
$tran_el = array()
$tran_key = 'ENST00000611218'
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
ENSMUSG00000019278-ENSMUSG00000000743		CGP	10090	8:123186235-123212763
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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