| Source ID |
Type |
Tax ID |
Position |
| TANK |
UCNEbase |
7955 |
9:52841084-52878552  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007OV_0003 [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000115233' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSG00000221590' => null,
'ENSG00000225813' => null,
'ENSG00000227403' => null,
'ENSG00000232320' => null,
'ENSG00000235724' => null,
'ENSMUSG00000026914' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSMUSG00000081954' => 'predicted gene 13626',
'ENSMUSG00000092660' => 'predicted gene, 22403'
),
'gene_name_arr' => array(
'ENSG00000115233' => 'PSMD14',
'ENSG00000221590' => 'AC009299.1',
'ENSG00000225813' => 'AC009299.4',
'ENSG00000227403' => 'AC009299.3',
'ENSG00000232320' => 'AC009299.5',
'ENSG00000235724' => 'AC009299.2',
'ENSMUSG00000026914' => 'Psmd14',
'ENSMUSG00000081954' => 'Gm13626',
'ENSMUSG00000092660' => 'Gm22403'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 23 => 'Heart',
(int) 27 => 'Kidney',
(int) 31 => 'Liver',
(int) 36 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => '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) 25,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000409682' => array(
'start' => '161308038',
'end' => '161411717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-001'
),
'ENST00000437630' => array(
'start' => '161308600',
'end' => '161370119',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-002'
),
'ENST00000477232' => array(
'start' => '161381360',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-005'
),
'ENST00000478123' => array(
'start' => '161308461',
'end' => '161319022',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-003'
),
'ENST00000492908' => array(
'start' => '161407528',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-006'
),
'ENST00000408663' => array(
'start' => '161350217',
'end' => '161350360',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009299.1-201'
),
'ENST00000429684' => array(
'start' => '161281902',
'end' => '161282618',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.4-001'
),
'ENST00000436506' => array(
'start' => '161244755',
'end' => '161247454',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-002'
),
'ENST00000439050' => array(
'start' => '161244739',
'end' => '161249050',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-001'
),
'ENST00000482477' => array(
'start' => '161340816',
'end' => '161341326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.5-001'
),
'ENST00000421122' => array(
'start' => '161222785',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-002'
),
'ENST00000435692' => array(
'start' => '161246247',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-003'
),
'ENST00000445372' => array(
'start' => '161223260',
'end' => '161251162',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-001'
),
'ENST00000609940' => array(
'start' => '161246434',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-004'
),
'ENST00000610254' => array(
'start' => '161246445',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-005'
),
'ENSMUST00000028278' => array(
'start' => '61711694',
'end' => '61800376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Psmd14-001'
),
'ENSMUST00000125388' => array(
'start' => '61776578',
'end' => '61800074',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-008'
),
'ENSMUST00000134658' => array(
'start' => '61715823',
'end' => '61751053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-006'
),
'ENSMUST00000135265' => array(
'start' => '61711742',
'end' => '61720851',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-005'
),
'ENSMUST00000139475' => array(
'start' => '61711780',
'end' => '61725708',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-002'
),
'ENSMUST00000146051' => array(
'start' => '61711760',
'end' => '61764908',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-004'
),
'ENSMUST00000153683' => array(
'start' => '61711791',
'end' => '61761380',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-003'
),
'ENSMUST00000154627' => array(
'start' => '61765386',
'end' => '61800053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-007'
),
'ENSMUST00000119435' => array(
'start' => '61706893',
'end' => '61707591',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13626-001'
),
'ENSMUST00000174919' => array(
'start' => '61762386',
'end' => '61762469',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22403-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
'ENSG00000115233' => array(
[maximum depth reached]
),
'ENSG00000225813' => array(
[maximum depth reached]
),
'ENSG00000232320' => 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 => 'Bladder',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Brain',
(int) 23 => 'Breast',
(int) 24 => 'Colon',
(int) 25 => 'Heart',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Lung',
(int) 29 => 'Muscle',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Ovary'
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026914' => array(
[maximum depth reached]
),
'ENSMUSG00000081954' => 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 => 'Brain',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Adrenal',
(int) 19 => 'Ovary',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta'
)
)
)
$gene_desc_arr = array(
'ENSG00000115233' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSG00000221590' => null,
'ENSG00000225813' => null,
'ENSG00000227403' => null,
'ENSG00000232320' => null,
'ENSG00000235724' => null,
'ENSMUSG00000026914' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSMUSG00000081954' => 'predicted gene 13626',
'ENSMUSG00000092660' => 'predicted gene, 22403'
)
$gene_name_arr = array(
'ENSG00000115233' => 'PSMD14',
'ENSG00000221590' => 'AC009299.1',
'ENSG00000225813' => 'AC009299.4',
'ENSG00000227403' => 'AC009299.3',
'ENSG00000232320' => 'AC009299.5',
'ENSG00000235724' => 'AC009299.2',
'ENSMUSG00000026914' => 'Psmd14',
'ENSMUSG00000081954' => 'Gm13626',
'ENSMUSG00000092660' => 'Gm22403'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '161238541',
'seq_end' => '161382542',
'region_length' => '144001',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '61656329',
'seq_end' => '61774192',
'region_length' => '117863',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0003',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '52841084',
'seq_end' => '52878552',
'region_length' => '37468',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 23 => 'Heart',
(int) 27 => 'Kidney',
(int) 31 => 'Liver',
(int) 36 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => '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) 25
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000409682' => array(
'start' => '161308038',
'end' => '161411717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-001'
),
'ENST00000437630' => array(
'start' => '161308600',
'end' => '161370119',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-002'
),
'ENST00000477232' => array(
'start' => '161381360',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-005'
),
'ENST00000478123' => array(
'start' => '161308461',
'end' => '161319022',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-003'
),
'ENST00000492908' => array(
'start' => '161407528',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-006'
),
'ENST00000408663' => array(
'start' => '161350217',
'end' => '161350360',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009299.1-201'
),
'ENST00000429684' => array(
'start' => '161281902',
'end' => '161282618',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.4-001'
),
'ENST00000436506' => array(
'start' => '161244755',
'end' => '161247454',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-002'
),
'ENST00000439050' => array(
'start' => '161244739',
'end' => '161249050',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-001'
),
'ENST00000482477' => array(
'start' => '161340816',
'end' => '161341326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.5-001'
),
'ENST00000421122' => array(
'start' => '161222785',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-002'
),
'ENST00000435692' => array(
'start' => '161246247',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-003'
),
'ENST00000445372' => array(
'start' => '161223260',
'end' => '161251162',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-001'
),
'ENST00000609940' => array(
'start' => '161246434',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-004'
),
'ENST00000610254' => array(
'start' => '161246445',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-005'
),
'ENSMUST00000028278' => array(
'start' => '61711694',
'end' => '61800376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Psmd14-001'
),
'ENSMUST00000125388' => array(
'start' => '61776578',
'end' => '61800074',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-008'
),
'ENSMUST00000134658' => array(
'start' => '61715823',
'end' => '61751053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-006'
),
'ENSMUST00000135265' => array(
'start' => '61711742',
'end' => '61720851',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-005'
),
'ENSMUST00000139475' => array(
'start' => '61711780',
'end' => '61725708',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-002'
),
'ENSMUST00000146051' => array(
'start' => '61711760',
'end' => '61764908',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-004'
),
'ENSMUST00000153683' => array(
'start' => '61711791',
'end' => '61761380',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-003'
),
'ENSMUST00000154627' => array(
'start' => '61765386',
'end' => '61800053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-007'
),
'ENSMUST00000119435' => array(
'start' => '61706893',
'end' => '61707591',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13626-001'
),
'ENSMUST00000174919' => array(
'start' => '61762386',
'end' => '61762469',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22403-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
'ENSG00000115233' => array(
[maximum depth reached]
),
'ENSG00000225813' => array(
[maximum depth reached]
),
'ENSG00000232320' => 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 => 'Bladder',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Brain',
(int) 23 => 'Breast',
(int) 24 => 'Colon',
(int) 25 => 'Heart',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Lung',
(int) 29 => 'Muscle',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Ovary'
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026914' => array(
[maximum depth reached]
),
'ENSMUSG00000081954' => 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 => 'Brain',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Adrenal',
(int) 19 => 'Ovary',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0003',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '52841084',
'seq_end' => '52878552',
'region_length' => '37468',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
)
$gene_el = array(
'ENSMUST00000119435' => array(
'Ovary' => array(
'average_FPKM' => '0.383',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.117',
'stddev_FPKM' => '0.08'
)
)
)
$gene_key = 'ENSMUSG00000081954'
$is_first = false
$tran_el = array(
'Ovary' => array(
'average_FPKM' => '0.383',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.117',
'stddev_FPKM' => '0.08'
)
)
$tran_key = 'ENSMUST00000119435'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007OV_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000115233' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSG00000221590' => null,
'ENSG00000225813' => null,
'ENSG00000227403' => null,
'ENSG00000232320' => null,
'ENSG00000235724' => null,
'ENSMUSG00000026914' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSMUSG00000081954' => 'predicted gene 13626',
'ENSMUSG00000092660' => 'predicted gene, 22403'
),
'gene_name_arr' => array(
'ENSG00000115233' => 'PSMD14',
'ENSG00000221590' => 'AC009299.1',
'ENSG00000225813' => 'AC009299.4',
'ENSG00000227403' => 'AC009299.3',
'ENSG00000232320' => 'AC009299.5',
'ENSG00000235724' => 'AC009299.2',
'ENSMUSG00000026914' => 'Psmd14',
'ENSMUSG00000081954' => 'Gm13626',
'ENSMUSG00000092660' => 'Gm22403'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 23 => 'Heart',
(int) 27 => 'Kidney',
(int) 31 => 'Liver',
(int) 36 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => '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) 25,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000409682' => array(
'start' => '161308038',
'end' => '161411717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-001'
),
'ENST00000437630' => array(
'start' => '161308600',
'end' => '161370119',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-002'
),
'ENST00000477232' => array(
'start' => '161381360',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-005'
),
'ENST00000478123' => array(
'start' => '161308461',
'end' => '161319022',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-003'
),
'ENST00000492908' => array(
'start' => '161407528',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-006'
),
'ENST00000408663' => array(
'start' => '161350217',
'end' => '161350360',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009299.1-201'
),
'ENST00000429684' => array(
'start' => '161281902',
'end' => '161282618',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.4-001'
),
'ENST00000436506' => array(
'start' => '161244755',
'end' => '161247454',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-002'
),
'ENST00000439050' => array(
'start' => '161244739',
'end' => '161249050',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-001'
),
'ENST00000482477' => array(
'start' => '161340816',
'end' => '161341326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.5-001'
),
'ENST00000421122' => array(
'start' => '161222785',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-002'
),
'ENST00000435692' => array(
'start' => '161246247',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-003'
),
'ENST00000445372' => array(
'start' => '161223260',
'end' => '161251162',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-001'
),
'ENST00000609940' => array(
'start' => '161246434',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-004'
),
'ENST00000610254' => array(
'start' => '161246445',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-005'
),
'ENSMUST00000028278' => array(
'start' => '61711694',
'end' => '61800376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Psmd14-001'
),
'ENSMUST00000125388' => array(
'start' => '61776578',
'end' => '61800074',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-008'
),
'ENSMUST00000134658' => array(
'start' => '61715823',
'end' => '61751053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-006'
),
'ENSMUST00000135265' => array(
'start' => '61711742',
'end' => '61720851',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-005'
),
'ENSMUST00000139475' => array(
'start' => '61711780',
'end' => '61725708',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-002'
),
'ENSMUST00000146051' => array(
'start' => '61711760',
'end' => '61764908',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-004'
),
'ENSMUST00000153683' => array(
'start' => '61711791',
'end' => '61761380',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-003'
),
'ENSMUST00000154627' => array(
'start' => '61765386',
'end' => '61800053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-007'
),
'ENSMUST00000119435' => array(
'start' => '61706893',
'end' => '61707591',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13626-001'
),
'ENSMUST00000174919' => array(
'start' => '61762386',
'end' => '61762469',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22403-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
'ENSG00000115233' => array(
[maximum depth reached]
),
'ENSG00000225813' => array(
[maximum depth reached]
),
'ENSG00000232320' => 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 => 'Bladder',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Brain',
(int) 23 => 'Breast',
(int) 24 => 'Colon',
(int) 25 => 'Heart',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Lung',
(int) 29 => 'Muscle',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Ovary'
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026914' => array(
[maximum depth reached]
),
'ENSMUSG00000081954' => 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 => 'Brain',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Adrenal',
(int) 19 => 'Ovary',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta'
)
)
)
$gene_desc_arr = array(
'ENSG00000115233' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSG00000221590' => null,
'ENSG00000225813' => null,
'ENSG00000227403' => null,
'ENSG00000232320' => null,
'ENSG00000235724' => null,
'ENSMUSG00000026914' => 'proteasome (prosome, macropain) 26S subunit, non-ATPase, 14',
'ENSMUSG00000081954' => 'predicted gene 13626',
'ENSMUSG00000092660' => 'predicted gene, 22403'
)
$gene_name_arr = array(
'ENSG00000115233' => 'PSMD14',
'ENSG00000221590' => 'AC009299.1',
'ENSG00000225813' => 'AC009299.4',
'ENSG00000227403' => 'AC009299.3',
'ENSG00000232320' => 'AC009299.5',
'ENSG00000235724' => 'AC009299.2',
'ENSMUSG00000026914' => 'Psmd14',
'ENSMUSG00000081954' => 'Gm13626',
'ENSMUSG00000092660' => 'Gm22403'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '161238541',
'seq_end' => '161382542',
'region_length' => '144001',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '61656329',
'seq_end' => '61774192',
'region_length' => '117863',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0003',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '52841084',
'seq_end' => '52878552',
'region_length' => '37468',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 23 => 'Heart',
(int) 27 => 'Kidney',
(int) 31 => 'Liver',
(int) 36 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => '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) 25
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000409682' => array(
'start' => '161308038',
'end' => '161411717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-001'
),
'ENST00000437630' => array(
'start' => '161308600',
'end' => '161370119',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PSMD14-002'
),
'ENST00000477232' => array(
'start' => '161381360',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-005'
),
'ENST00000478123' => array(
'start' => '161308461',
'end' => '161319022',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-003'
),
'ENST00000492908' => array(
'start' => '161407528',
'end' => '161411715',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PSMD14-006'
),
'ENST00000408663' => array(
'start' => '161350217',
'end' => '161350360',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009299.1-201'
),
'ENST00000429684' => array(
'start' => '161281902',
'end' => '161282618',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.4-001'
),
'ENST00000436506' => array(
'start' => '161244755',
'end' => '161247454',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-002'
),
'ENST00000439050' => array(
'start' => '161244739',
'end' => '161249050',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC009299.3-001'
),
'ENST00000482477' => array(
'start' => '161340816',
'end' => '161341326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC009299.5-001'
),
'ENST00000421122' => array(
'start' => '161222785',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-002'
),
'ENST00000435692' => array(
'start' => '161246247',
'end' => '161254668',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-003'
),
'ENST00000445372' => array(
'start' => '161223260',
'end' => '161251162',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-001'
),
'ENST00000609940' => array(
'start' => '161246434',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-004'
),
'ENST00000610254' => array(
'start' => '161246445',
'end' => '161254630',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC009299.2-005'
),
'ENSMUST00000028278' => array(
'start' => '61711694',
'end' => '61800376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Psmd14-001'
),
'ENSMUST00000125388' => array(
'start' => '61776578',
'end' => '61800074',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-008'
),
'ENSMUST00000134658' => array(
'start' => '61715823',
'end' => '61751053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-006'
),
'ENSMUST00000135265' => array(
'start' => '61711742',
'end' => '61720851',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-005'
),
'ENSMUST00000139475' => array(
'start' => '61711780',
'end' => '61725708',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-002'
),
'ENSMUST00000146051' => array(
'start' => '61711760',
'end' => '61764908',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-004'
),
'ENSMUST00000153683' => array(
'start' => '61711791',
'end' => '61761380',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-003'
),
'ENSMUST00000154627' => array(
'start' => '61765386',
'end' => '61800053',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Psmd14-007'
),
'ENSMUST00000119435' => array(
'start' => '61706893',
'end' => '61707591',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13626-001'
),
'ENSMUST00000174919' => array(
'start' => '61762386',
'end' => '61762469',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22403-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007OV_0001' => array(
'genes_in_region' => array(
'ENSG00000115233' => array(
[maximum depth reached]
),
'ENSG00000225813' => array(
[maximum depth reached]
),
'ENSG00000232320' => 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 => 'Bladder',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Brain',
(int) 23 => 'Breast',
(int) 24 => 'Colon',
(int) 25 => 'Heart',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Lung',
(int) 29 => 'Muscle',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Ovary'
)
),
'CIL_0007OV_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026914' => array(
[maximum depth reached]
),
'ENSMUSG00000081954' => 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 => 'Brain',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Adrenal',
(int) 19 => 'Ovary',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OV_0003',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '52841084',
'seq_end' => '52878552',
'region_length' => '37468',
'region_type' => 'UCNEbase',
'el_id' => 'TANK'
)
)
$gene_el = array(
'ENSMUST00000119435' => array(
'Ovary' => array(
'average_FPKM' => '0.383',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.117',
'stddev_FPKM' => '0.08'
)
)
)
$gene_key = 'ENSMUSG00000081954'
$is_first = false
$tran_el = array(
'Ovary' => array(
'average_FPKM' => '0.383',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.117',
'stddev_FPKM' => '0.08'
)
)
$tran_key = 'ENSMUST00000119435'
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
(PSMD14)