Institute of Cardiovascular Regeneration Webtool Repository

Notice (8): Undefined index: CIL_000135_0001 [APP/View/Region/show.ctp, line 46]Code Context
        <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
        <?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
	'region_arr' => array(
		'CIL_000135_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000125995' => 'reactive oxygen species modulator 1',
		'ENSG00000244005' => 'NFS1 cysteine desulfurase',
		'ENSG00000272897' => null,
		'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
		'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
		'ENSMUSG00000098950' => 'predicted gene, 28036'
	),
	'gene_name_arr' => array(
		'ENSG00000125995' => 'ROMO1',
		'ENSG00000244005' => 'NFS1',
		'ENSG00000272897' => 'RP1-309K20.6',
		'ENSMUSG00000027618' => 'Nfs1',
		'ENSMUSG00000067847' => 'Romo1',
		'ENSMUSG00000098950' => 'Gm28036'
	),
	'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) 2 => 'Adrenal',
		(int) 5 => 'Bladder',
		(int) 7 => 'Brain',
		(int) 12 => 'Breast',
		(int) 14 => 'Colon',
		(int) 16 => 'Heart',
		(int) 19 => 'Kidney',
		(int) 23 => 'Liver',
		(int) 26 => 'Lung',
		(int) 28 => 'Muscle',
		(int) 32 => 'Ovary',
		(int) 36 => 'Placenta',
		(int) 39 => '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) 38,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000336695' => array(
			'start' => '35699451',
			'end' => '35700980',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-002'
		),
		'ENST00000374072' => array(
			'start' => '35699442',
			'end' => '35700978',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-004'
		),
		'ENST00000374077' => array(
			'start' => '35699353',
			'end' => '35700984',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-001'
		),
		'ENST00000374078' => array(
			'start' => '35699272',
			'end' => '35700984',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-003'
		),
		'ENST00000397416' => array(
			'start' => '35699451',
			'end' => '35700910',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-005'
		),
		'ENST00000306750' => array(
			'start' => '35694572',
			'end' => '35699304',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-006'
		),
		'ENST00000374085' => array(
			'start' => '35668699',
			'end' => '35699189',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-003'
		),
		'ENST00000374092' => array(
			'start' => '35668055',
			'end' => '35699359',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-001'
		),
		'ENST00000397425' => array(
			'start' => '35668983',
			'end' => '35699349',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-009'
		),
		'ENST00000413203' => array(
			'start' => '35681965',
			'end' => '35699352',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-011'
		),
		'ENST00000419569' => array(
			'start' => '35690471',
			'end' => '35699189',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-013'
		),
		'ENST00000421540' => array(
			'start' => '35690526',
			'end' => '35699355',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-010'
		),
		'ENST00000440385' => array(
			'start' => '35668993',
			'end' => '35699355',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-002'
		),
		'ENST00000456462' => array(
			'start' => '35690413',
			'end' => '35699352',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-012'
		),
		'ENST00000471137' => array(
			'start' => '35673758',
			'end' => '35674798',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'NFS1-008'
		),
		'ENST00000480655' => array(
			'start' => '35668964',
			'end' => '35676186',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'NFS1-004'
		),
		'ENST00000489163' => array(
			'start' => '35674531',
			'end' => '35682791',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-007'
		),
		'ENST00000498084' => array(
			'start' => '35668964',
			'end' => '35674066',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-005'
		),
		'ENST00000541387' => array(
			'start' => '35669471',
			'end' => '35699352',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-017'
		),
		'ENST00000441563' => array(
			'start' => '35632340',
			'end' => '35674400',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-003'
		),
		'ENST00000454607' => array(
			'start' => '35632340',
			'end' => '35674400',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-002'
		),
		'ENST00000541176' => array(
			'start' => '35632340',
			'end' => '35674544',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-001'
		),
		'ENSMUST00000029147' => array(
			'start' => '156123639',
			'end' => '156144186',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-001'
		),
		'ENSMUST00000109600' => array(
			'start' => '156141787',
			'end' => '156144180',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-002'
		),
		'ENSMUST00000125449' => array(
			'start' => '156138507',
			'end' => '156144153',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Nfs1-003'
		),
		'ENSMUST00000184469' => array(
			'start' => '156123650',
			'end' => '156139809',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-007'
		),
		'ENSMUST00000088610' => array(
			'start' => '156144039',
			'end' => '156145797',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-001'
		),
		'ENSMUST00000109597' => array(
			'start' => '156144233',
			'end' => '156145794',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-003'
		),
		'ENSMUST00000109598' => array(
			'start' => '156144237',
			'end' => '156145783',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-002'
		),
		'ENSMUST00000119950' => array(
			'start' => '156144240',
			'end' => '156145794',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-004'
		),
		'ENSMUST00000127956' => array(
			'start' => '156071845',
			'end' => '156098085',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-002'
		),
		'ENSMUST00000132494' => array(
			'start' => '156071845',
			'end' => '156111901',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-001'
		),
		'ENSMUST00000159952' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-008'
		),
		'ENSMUST00000160165' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-007'
		),
		'ENSMUST00000162612' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-006'
		),
		'ENSMUST00000183518' => array(
			'start' => '156079424',
			'end' => '156111931',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm28036-003'
		),
		'ENSMUST00000183972' => array(
			'start' => '156079097',
			'end' => '156096928',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-005'
		),
		'ENSMUST00000184899' => array(
			'start' => '156079091',
			'end' => '156111926',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-004'
		)
	),
	'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_000135_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000135_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000027618' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000067847' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000098950' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Adrenal',
			(int) 2 => 'Bladder',
			(int) 3 => 'Brain',
			(int) 4 => 'Breast',
			(int) 5 => 'Colon',
			(int) 6 => 'Heart',
			(int) 7 => 'Kidney',
			(int) 8 => 'Liver',
			(int) 9 => 'Lung',
			(int) 10 => 'Muscle',
			(int) 11 => 'Ovary',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Adrenal',
			(int) 15 => 'Adipose',
			(int) 16 => 'Adrenal',
			(int) 17 => 'Bladder',
			(int) 18 => 'Brain',
			(int) 19 => 'Breast',
			(int) 20 => 'Colon',
			(int) 21 => 'Heart',
			(int) 22 => 'Kidney',
			(int) 23 => 'Liver',
			(int) 24 => 'Lung',
			(int) 25 => 'Muscle',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Testis',
			(int) 29 => 'Ovary',
			(int) 30 => 'Brain',
			(int) 31 => 'Ovary',
			(int) 32 => 'Placenta',
			(int) 33 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000125995' => 'reactive oxygen species modulator 1',
	'ENSG00000244005' => 'NFS1 cysteine desulfurase',
	'ENSG00000272897' => null,
	'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
	'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
	'ENSMUSG00000098950' => 'predicted gene, 28036'
)
$gene_name_arr = array(
	'ENSG00000125995' => 'ROMO1',
	'ENSG00000244005' => 'NFS1',
	'ENSG00000272897' => 'RP1-309K20.6',
	'ENSMUSG00000027618' => 'Nfs1',
	'ENSMUSG00000067847' => 'Romo1',
	'ENSMUSG00000098950' => 'Gm28036'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000135_0001',
			'tax_id' => '9606',
			'chromosome' => '20',
			'seq_start' => '35668055',
			'seq_end' => '35700984',
			'region_length' => '32929',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000244005-ENSG00000125995'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000135_0002',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '156123639',
			'seq_end' => '156145797',
			'region_length' => '22158',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000027618-ENSMUSG00000067847'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 2 => 'Adrenal',
	(int) 5 => 'Bladder',
	(int) 7 => 'Brain',
	(int) 12 => 'Breast',
	(int) 14 => 'Colon',
	(int) 16 => 'Heart',
	(int) 19 => 'Kidney',
	(int) 23 => 'Liver',
	(int) 26 => 'Lung',
	(int) 28 => 'Muscle',
	(int) 32 => 'Ovary',
	(int) 36 => 'Placenta',
	(int) 39 => '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) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000336695' => array(
		'start' => '35699451',
		'end' => '35700980',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-002'
	),
	'ENST00000374072' => array(
		'start' => '35699442',
		'end' => '35700978',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-004'
	),
	'ENST00000374077' => array(
		'start' => '35699353',
		'end' => '35700984',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-001'
	),
	'ENST00000374078' => array(
		'start' => '35699272',
		'end' => '35700984',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-003'
	),
	'ENST00000397416' => array(
		'start' => '35699451',
		'end' => '35700910',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-005'
	),
	'ENST00000306750' => array(
		'start' => '35694572',
		'end' => '35699304',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-006'
	),
	'ENST00000374085' => array(
		'start' => '35668699',
		'end' => '35699189',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-003'
	),
	'ENST00000374092' => array(
		'start' => '35668055',
		'end' => '35699359',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-001'
	),
	'ENST00000397425' => array(
		'start' => '35668983',
		'end' => '35699349',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-009'
	),
	'ENST00000413203' => array(
		'start' => '35681965',
		'end' => '35699352',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-011'
	),
	'ENST00000419569' => array(
		'start' => '35690471',
		'end' => '35699189',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-013'
	),
	'ENST00000421540' => array(
		'start' => '35690526',
		'end' => '35699355',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-010'
	),
	'ENST00000440385' => array(
		'start' => '35668993',
		'end' => '35699355',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-002'
	),
	'ENST00000456462' => array(
		'start' => '35690413',
		'end' => '35699352',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-012'
	),
	'ENST00000471137' => array(
		'start' => '35673758',
		'end' => '35674798',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'NFS1-008'
	),
	'ENST00000480655' => array(
		'start' => '35668964',
		'end' => '35676186',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'NFS1-004'
	),
	'ENST00000489163' => array(
		'start' => '35674531',
		'end' => '35682791',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-007'
	),
	'ENST00000498084' => array(
		'start' => '35668964',
		'end' => '35674066',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-005'
	),
	'ENST00000541387' => array(
		'start' => '35669471',
		'end' => '35699352',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-017'
	),
	'ENST00000441563' => array(
		'start' => '35632340',
		'end' => '35674400',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-003'
	),
	'ENST00000454607' => array(
		'start' => '35632340',
		'end' => '35674400',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-002'
	),
	'ENST00000541176' => array(
		'start' => '35632340',
		'end' => '35674544',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-001'
	),
	'ENSMUST00000029147' => array(
		'start' => '156123639',
		'end' => '156144186',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-001'
	),
	'ENSMUST00000109600' => array(
		'start' => '156141787',
		'end' => '156144180',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-002'
	),
	'ENSMUST00000125449' => array(
		'start' => '156138507',
		'end' => '156144153',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Nfs1-003'
	),
	'ENSMUST00000184469' => array(
		'start' => '156123650',
		'end' => '156139809',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-007'
	),
	'ENSMUST00000088610' => array(
		'start' => '156144039',
		'end' => '156145797',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-001'
	),
	'ENSMUST00000109597' => array(
		'start' => '156144233',
		'end' => '156145794',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-003'
	),
	'ENSMUST00000109598' => array(
		'start' => '156144237',
		'end' => '156145783',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-002'
	),
	'ENSMUST00000119950' => array(
		'start' => '156144240',
		'end' => '156145794',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-004'
	),
	'ENSMUST00000127956' => array(
		'start' => '156071845',
		'end' => '156098085',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-002'
	),
	'ENSMUST00000132494' => array(
		'start' => '156071845',
		'end' => '156111901',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-001'
	),
	'ENSMUST00000159952' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-008'
	),
	'ENSMUST00000160165' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-007'
	),
	'ENSMUST00000162612' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-006'
	),
	'ENSMUST00000183518' => array(
		'start' => '156079424',
		'end' => '156111931',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm28036-003'
	),
	'ENSMUST00000183972' => array(
		'start' => '156079097',
		'end' => '156096928',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-005'
	),
	'ENSMUST00000184899' => array(
		'start' => '156079091',
		'end' => '156111926',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-004'
	)
)
$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_000135_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000027618' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000067847' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000098950' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Adrenal',
			(int) 2 => 'Bladder',
			(int) 3 => 'Brain',
			(int) 4 => 'Breast',
			(int) 5 => 'Colon',
			(int) 6 => 'Heart',
			(int) 7 => 'Kidney',
			(int) 8 => 'Liver',
			(int) 9 => 'Lung',
			(int) 10 => 'Muscle',
			(int) 11 => 'Ovary',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Adrenal',
			(int) 15 => 'Adipose',
			(int) 16 => 'Adrenal',
			(int) 17 => 'Bladder',
			(int) 18 => 'Brain',
			(int) 19 => 'Breast',
			(int) 20 => 'Colon',
			(int) 21 => 'Heart',
			(int) 22 => 'Kidney',
			(int) 23 => 'Liver',
			(int) 24 => 'Lung',
			(int) 25 => 'Muscle',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Testis',
			(int) 29 => 'Ovary',
			(int) 30 => 'Brain',
			(int) 31 => 'Ovary',
			(int) 32 => 'Placenta',
			(int) 33 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000135_0001',
		'tax_id' => '9606',
		'chromosome' => '20',
		'seq_start' => '35668055',
		'seq_end' => '35700984',
		'region_length' => '32929',
		'region_type' => 'CGP',
		'el_id' => 'ENSG00000244005-ENSG00000125995'
	)
)
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_000135_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	),
	'gene_desc_arr' => array(
		'ENSG00000125995' => 'reactive oxygen species modulator 1',
		'ENSG00000244005' => 'NFS1 cysteine desulfurase',
		'ENSG00000272897' => null,
		'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
		'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
		'ENSMUSG00000098950' => 'predicted gene, 28036'
	),
	'gene_name_arr' => array(
		'ENSG00000125995' => 'ROMO1',
		'ENSG00000244005' => 'NFS1',
		'ENSG00000272897' => 'RP1-309K20.6',
		'ENSMUSG00000027618' => 'Nfs1',
		'ENSMUSG00000067847' => 'Romo1',
		'ENSMUSG00000098950' => 'Gm28036'
	),
	'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) 2 => 'Adrenal',
		(int) 5 => 'Bladder',
		(int) 7 => 'Brain',
		(int) 12 => 'Breast',
		(int) 14 => 'Colon',
		(int) 16 => 'Heart',
		(int) 19 => 'Kidney',
		(int) 23 => 'Liver',
		(int) 26 => 'Lung',
		(int) 28 => 'Muscle',
		(int) 32 => 'Ovary',
		(int) 36 => 'Placenta',
		(int) 39 => '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) 38,
	'longest_tissue_len' => (int) 8,
	'transcript_data' => array(
		'ENST00000336695' => array(
			'start' => '35699451',
			'end' => '35700980',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-002'
		),
		'ENST00000374072' => array(
			'start' => '35699442',
			'end' => '35700978',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-004'
		),
		'ENST00000374077' => array(
			'start' => '35699353',
			'end' => '35700984',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-001'
		),
		'ENST00000374078' => array(
			'start' => '35699272',
			'end' => '35700984',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-003'
		),
		'ENST00000397416' => array(
			'start' => '35699451',
			'end' => '35700910',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'ROMO1-005'
		),
		'ENST00000306750' => array(
			'start' => '35694572',
			'end' => '35699304',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-006'
		),
		'ENST00000374085' => array(
			'start' => '35668699',
			'end' => '35699189',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-003'
		),
		'ENST00000374092' => array(
			'start' => '35668055',
			'end' => '35699359',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-001'
		),
		'ENST00000397425' => array(
			'start' => '35668983',
			'end' => '35699349',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-009'
		),
		'ENST00000413203' => array(
			'start' => '35681965',
			'end' => '35699352',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-011'
		),
		'ENST00000419569' => array(
			'start' => '35690471',
			'end' => '35699189',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-013'
		),
		'ENST00000421540' => array(
			'start' => '35690526',
			'end' => '35699355',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-010'
		),
		'ENST00000440385' => array(
			'start' => '35668993',
			'end' => '35699355',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-002'
		),
		'ENST00000456462' => array(
			'start' => '35690413',
			'end' => '35699352',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'NFS1-012'
		),
		'ENST00000471137' => array(
			'start' => '35673758',
			'end' => '35674798',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'NFS1-008'
		),
		'ENST00000480655' => array(
			'start' => '35668964',
			'end' => '35676186',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'NFS1-004'
		),
		'ENST00000489163' => array(
			'start' => '35674531',
			'end' => '35682791',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-007'
		),
		'ENST00000498084' => array(
			'start' => '35668964',
			'end' => '35674066',
			'transcript_biotype' => 'processed_transcript',
			'transcript_name' => 'NFS1-005'
		),
		'ENST00000541387' => array(
			'start' => '35669471',
			'end' => '35699352',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'NFS1-017'
		),
		'ENST00000441563' => array(
			'start' => '35632340',
			'end' => '35674400',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-003'
		),
		'ENST00000454607' => array(
			'start' => '35632340',
			'end' => '35674400',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-002'
		),
		'ENST00000541176' => array(
			'start' => '35632340',
			'end' => '35674544',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'RP1-309K20.6-001'
		),
		'ENSMUST00000029147' => array(
			'start' => '156123639',
			'end' => '156144186',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-001'
		),
		'ENSMUST00000109600' => array(
			'start' => '156141787',
			'end' => '156144180',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-002'
		),
		'ENSMUST00000125449' => array(
			'start' => '156138507',
			'end' => '156144153',
			'transcript_biotype' => 'retained_intron',
			'transcript_name' => 'Nfs1-003'
		),
		'ENSMUST00000184469' => array(
			'start' => '156123650',
			'end' => '156139809',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Nfs1-007'
		),
		'ENSMUST00000088610' => array(
			'start' => '156144039',
			'end' => '156145797',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-001'
		),
		'ENSMUST00000109597' => array(
			'start' => '156144233',
			'end' => '156145794',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-003'
		),
		'ENSMUST00000109598' => array(
			'start' => '156144237',
			'end' => '156145783',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-002'
		),
		'ENSMUST00000119950' => array(
			'start' => '156144240',
			'end' => '156145794',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Romo1-004'
		),
		'ENSMUST00000127956' => array(
			'start' => '156071845',
			'end' => '156098085',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-002'
		),
		'ENSMUST00000132494' => array(
			'start' => '156071845',
			'end' => '156111901',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-001'
		),
		'ENSMUST00000159952' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-008'
		),
		'ENSMUST00000160165' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-007'
		),
		'ENSMUST00000162612' => array(
			'start' => '156078929',
			'end' => '156127092',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-006'
		),
		'ENSMUST00000183518' => array(
			'start' => '156079424',
			'end' => '156111931',
			'transcript_biotype' => 'protein_coding',
			'transcript_name' => 'Gm28036-003'
		),
		'ENSMUST00000183972' => array(
			'start' => '156079097',
			'end' => '156096928',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-005'
		),
		'ENSMUST00000184899' => array(
			'start' => '156079091',
			'end' => '156111926',
			'transcript_biotype' => 'nonsense_mediated_decay',
			'transcript_name' => 'Gm28036-004'
		)
	),
	'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_000135_0002' => array(
			'genes_in_region' => array(
				[maximum depth reached]
			),
			'tissues_title' => array(
				[maximum depth reached]
			)
		)
	)
)
$region_arr = array(
	'CIL_000135_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000027618' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000067847' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000098950' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Adrenal',
			(int) 2 => 'Bladder',
			(int) 3 => 'Brain',
			(int) 4 => 'Breast',
			(int) 5 => 'Colon',
			(int) 6 => 'Heart',
			(int) 7 => 'Kidney',
			(int) 8 => 'Liver',
			(int) 9 => 'Lung',
			(int) 10 => 'Muscle',
			(int) 11 => 'Ovary',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Adrenal',
			(int) 15 => 'Adipose',
			(int) 16 => 'Adrenal',
			(int) 17 => 'Bladder',
			(int) 18 => 'Brain',
			(int) 19 => 'Breast',
			(int) 20 => 'Colon',
			(int) 21 => 'Heart',
			(int) 22 => 'Kidney',
			(int) 23 => 'Liver',
			(int) 24 => 'Lung',
			(int) 25 => 'Muscle',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Testis',
			(int) 29 => 'Ovary',
			(int) 30 => 'Brain',
			(int) 31 => 'Ovary',
			(int) 32 => 'Placenta',
			(int) 33 => 'Testis'
		)
	)
)
$gene_desc_arr = array(
	'ENSG00000125995' => 'reactive oxygen species modulator 1',
	'ENSG00000244005' => 'NFS1 cysteine desulfurase',
	'ENSG00000272897' => null,
	'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
	'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
	'ENSMUSG00000098950' => 'predicted gene, 28036'
)
$gene_name_arr = array(
	'ENSG00000125995' => 'ROMO1',
	'ENSG00000244005' => 'NFS1',
	'ENSG00000272897' => 'RP1-309K20.6',
	'ENSMUSG00000027618' => 'Nfs1',
	'ENSMUSG00000067847' => 'Romo1',
	'ENSMUSG00000098950' => 'Gm28036'
)
$accession_table = array(
	(int) 0 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000135_0001',
			'tax_id' => '9606',
			'chromosome' => '20',
			'seq_start' => '35668055',
			'seq_end' => '35700984',
			'region_length' => '32929',
			'region_type' => 'CGP',
			'el_id' => 'ENSG00000244005-ENSG00000125995'
		)
	),
	(int) 1 => array(
		'region_elements' => array(
			'region_element_id' => 'CIL_000135_0002',
			'tax_id' => '10090',
			'chromosome' => '2',
			'seq_start' => '156123639',
			'seq_end' => '156145797',
			'region_length' => '22158',
			'region_type' => 'CGP',
			'el_id' => 'ENSMUSG00000027618-ENSMUSG00000067847'
		)
	)
)
$all_tissues = array(
	(int) 0 => 'Adipose',
	(int) 2 => 'Adrenal',
	(int) 5 => 'Bladder',
	(int) 7 => 'Brain',
	(int) 12 => 'Breast',
	(int) 14 => 'Colon',
	(int) 16 => 'Heart',
	(int) 19 => 'Kidney',
	(int) 23 => 'Liver',
	(int) 26 => 'Lung',
	(int) 28 => 'Muscle',
	(int) 32 => 'Ovary',
	(int) 36 => 'Placenta',
	(int) 39 => '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) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
	'ENST00000336695' => array(
		'start' => '35699451',
		'end' => '35700980',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-002'
	),
	'ENST00000374072' => array(
		'start' => '35699442',
		'end' => '35700978',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-004'
	),
	'ENST00000374077' => array(
		'start' => '35699353',
		'end' => '35700984',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-001'
	),
	'ENST00000374078' => array(
		'start' => '35699272',
		'end' => '35700984',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-003'
	),
	'ENST00000397416' => array(
		'start' => '35699451',
		'end' => '35700910',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'ROMO1-005'
	),
	'ENST00000306750' => array(
		'start' => '35694572',
		'end' => '35699304',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-006'
	),
	'ENST00000374085' => array(
		'start' => '35668699',
		'end' => '35699189',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-003'
	),
	'ENST00000374092' => array(
		'start' => '35668055',
		'end' => '35699359',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-001'
	),
	'ENST00000397425' => array(
		'start' => '35668983',
		'end' => '35699349',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-009'
	),
	'ENST00000413203' => array(
		'start' => '35681965',
		'end' => '35699352',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-011'
	),
	'ENST00000419569' => array(
		'start' => '35690471',
		'end' => '35699189',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-013'
	),
	'ENST00000421540' => array(
		'start' => '35690526',
		'end' => '35699355',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-010'
	),
	'ENST00000440385' => array(
		'start' => '35668993',
		'end' => '35699355',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-002'
	),
	'ENST00000456462' => array(
		'start' => '35690413',
		'end' => '35699352',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'NFS1-012'
	),
	'ENST00000471137' => array(
		'start' => '35673758',
		'end' => '35674798',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'NFS1-008'
	),
	'ENST00000480655' => array(
		'start' => '35668964',
		'end' => '35676186',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'NFS1-004'
	),
	'ENST00000489163' => array(
		'start' => '35674531',
		'end' => '35682791',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-007'
	),
	'ENST00000498084' => array(
		'start' => '35668964',
		'end' => '35674066',
		'transcript_biotype' => 'processed_transcript',
		'transcript_name' => 'NFS1-005'
	),
	'ENST00000541387' => array(
		'start' => '35669471',
		'end' => '35699352',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'NFS1-017'
	),
	'ENST00000441563' => array(
		'start' => '35632340',
		'end' => '35674400',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-003'
	),
	'ENST00000454607' => array(
		'start' => '35632340',
		'end' => '35674400',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-002'
	),
	'ENST00000541176' => array(
		'start' => '35632340',
		'end' => '35674544',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'RP1-309K20.6-001'
	),
	'ENSMUST00000029147' => array(
		'start' => '156123639',
		'end' => '156144186',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-001'
	),
	'ENSMUST00000109600' => array(
		'start' => '156141787',
		'end' => '156144180',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-002'
	),
	'ENSMUST00000125449' => array(
		'start' => '156138507',
		'end' => '156144153',
		'transcript_biotype' => 'retained_intron',
		'transcript_name' => 'Nfs1-003'
	),
	'ENSMUST00000184469' => array(
		'start' => '156123650',
		'end' => '156139809',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Nfs1-007'
	),
	'ENSMUST00000088610' => array(
		'start' => '156144039',
		'end' => '156145797',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-001'
	),
	'ENSMUST00000109597' => array(
		'start' => '156144233',
		'end' => '156145794',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-003'
	),
	'ENSMUST00000109598' => array(
		'start' => '156144237',
		'end' => '156145783',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-002'
	),
	'ENSMUST00000119950' => array(
		'start' => '156144240',
		'end' => '156145794',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Romo1-004'
	),
	'ENSMUST00000127956' => array(
		'start' => '156071845',
		'end' => '156098085',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-002'
	),
	'ENSMUST00000132494' => array(
		'start' => '156071845',
		'end' => '156111901',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-001'
	),
	'ENSMUST00000159952' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-008'
	),
	'ENSMUST00000160165' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-007'
	),
	'ENSMUST00000162612' => array(
		'start' => '156078929',
		'end' => '156127092',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-006'
	),
	'ENSMUST00000183518' => array(
		'start' => '156079424',
		'end' => '156111931',
		'transcript_biotype' => 'protein_coding',
		'transcript_name' => 'Gm28036-003'
	),
	'ENSMUST00000183972' => array(
		'start' => '156079097',
		'end' => '156096928',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-005'
	),
	'ENSMUST00000184899' => array(
		'start' => '156079091',
		'end' => '156111926',
		'transcript_biotype' => 'nonsense_mediated_decay',
		'transcript_name' => 'Gm28036-004'
	)
)
$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_000135_0002' => array(
		'genes_in_region' => array(
			'ENSMUSG00000027618' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000067847' => array(
				[maximum depth reached]
			),
			'ENSMUSG00000098950' => array(
				[maximum depth reached]
			)
		),
		'tissues_title' => array(
			(int) 0 => 'Adipose',
			(int) 1 => 'Adrenal',
			(int) 2 => 'Bladder',
			(int) 3 => 'Brain',
			(int) 4 => 'Breast',
			(int) 5 => 'Colon',
			(int) 6 => 'Heart',
			(int) 7 => 'Kidney',
			(int) 8 => 'Liver',
			(int) 9 => 'Lung',
			(int) 10 => 'Muscle',
			(int) 11 => 'Ovary',
			(int) 12 => 'Placenta',
			(int) 13 => 'Testis',
			(int) 14 => 'Adrenal',
			(int) 15 => 'Adipose',
			(int) 16 => 'Adrenal',
			(int) 17 => 'Bladder',
			(int) 18 => 'Brain',
			(int) 19 => 'Breast',
			(int) 20 => 'Colon',
			(int) 21 => 'Heart',
			(int) 22 => 'Kidney',
			(int) 23 => 'Liver',
			(int) 24 => 'Lung',
			(int) 25 => 'Muscle',
			(int) 26 => 'Ovary',
			(int) 27 => 'Placenta',
			(int) 28 => 'Testis',
			(int) 29 => 'Ovary',
			(int) 30 => 'Brain',
			(int) 31 => 'Ovary',
			(int) 32 => 'Placenta',
			(int) 33 => 'Testis'
		)
	)
)
$accession = array(
	'region_elements' => array(
		'region_element_id' => 'CIL_000135_0001',
		'tax_id' => '9606',
		'chromosome' => '20',
		'seq_start' => '35668055',
		'seq_end' => '35700984',
		'region_length' => '32929',
		'region_type' => 'CGP',
		'el_id' => 'ENSG00000244005-ENSG00000125995'
	)
)
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
ENSG00000244005-ENSG00000125995		CGP	9606	20:35668055-35700984
Gene		Transcript	Position	Biotype

Source ID	Type	Tax ID	Position
ENSMUSG00000027618-ENSMUSG00000067847	CGP	10090	2:156123639-156145797
Gene	Transcript	Position	Biotype
ENSMUSG00000027618 (Nfs1) nitrogen fixation gene 1 (S. cerevisiae)	ENSMUST00000029147 (Nfs1-001)	156123639-156144186	protein_coding
	ENSMUST00000109600 (Nfs1-002)	156141787-156144180	protein_coding
	ENSMUST00000125449 (Nfs1-003)	156138507-156144153	retained_intron
	ENSMUST00000184469 (Nfs1-007)	156123650-156139809	protein_coding
ENSMUSG00000067847 (Romo1) reactive oxygen species modulator 1	ENSMUST00000088610 (Romo1-001)	156144039-156145797	protein_coding
	ENSMUST00000109597 (Romo1-003)	156144233-156145794	protein_coding
	ENSMUST00000109598 (Romo1-002)	156144237-156145783	protein_coding
	ENSMUST00000119950 (Romo1-004)	156144240-156145794	protein_coding
ENSMUSG00000098950 (Gm28036) predicted gene, 28036	ENSMUST00000127956 (Gm28036-002)	156071845-156098085	nonsense_mediated_decay
	ENSMUST00000132494 (Gm28036-001)	156071845-156111901	nonsense_mediated_decay
	ENSMUST00000159952 (Gm28036-008)	156078929-156127092	nonsense_mediated_decay
	ENSMUST00000160165 (Gm28036-007)	156078929-156127092	nonsense_mediated_decay
	ENSMUST00000162612 (Gm28036-006)	156078929-156127092	nonsense_mediated_decay
	ENSMUST00000183518 (Gm28036-003)	156079424-156111931	protein_coding
	ENSMUST00000183972 (Gm28036-005)	156079097-156096928	nonsense_mediated_decay
	ENSMUST00000184899 (Gm28036-004)	156079091-156111926	nonsense_mediated_decay

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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