| Source ID |
Type |
Tax ID |
Position |
| ZNF703 |
UCNEbase |
10090 |
8:26205767-26808690  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007LB_0002 [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_0007LB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000215262' => 'potassium channel, subfamily U, member 1',
'ENSG00000219491' => 'tumor protein, translationally-controlled 1 pseudogene 8',
'ENSG00000243503' => null,
'ENSG00000253123' => null,
'ENSG00000253161' => null,
'ENSG00000253388' => null,
'ENSG00000253414' => null,
'ENSG00000253650' => 'SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 pseudogene 4',
'ENSG00000253746' => null,
'ENSG00000254038' => null,
'ENSG00000275998' => null,
'ENSMUSG00000087981' => 'predicted gene, 22227',
'ENSDARG00000080569' => '5S ribosomal RNA'
),
'gene_name_arr' => array(
'ENSG00000215262' => 'KCNU1',
'ENSG00000219491' => 'TPT1P8',
'ENSG00000243503' => 'AC090453.1',
'ENSG00000253123' => 'RP11-527N22.1',
'ENSG00000253161' => 'RP11-150O12.1',
'ENSG00000253388' => 'RP11-150O12.2',
'ENSG00000253414' => 'RP11-150O12.6',
'ENSG00000253650' => 'SMARCE1P4',
'ENSG00000253746' => 'RP11-527N22.2',
'ENSG00000254038' => 'RP11-419C23.1',
'ENSG00000275998' => 'AC068207.1',
'ENSMUSG00000087981' => 'Gm22227',
'ENSDARG00000080569' => '5S_rRNA'
),
'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) 4 => 'Adrenal',
(int) 9 => 'Brain',
(int) 15 => 'Breast',
(int) 22 => 'Colon',
(int) 26 => 'Heart',
(int) 31 => 'Kidney',
(int) 34 => 'Liver',
(int) 38 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => 'Ovary',
(int) 53 => 'Placenta',
(int) 59 => '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) 21,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000399881' => array(
'start' => '36784374',
'end' => '36936128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-001'
),
'ENST00000518904' => array(
'start' => '36928905',
'end' => '36931145',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-009'
),
'ENST00000522372' => array(
'start' => '36784383',
'end' => '36936125',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-002'
),
'ENST00000522417' => array(
'start' => '36784399',
'end' => '36807404',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-003'
),
'ENST00000523973' => array(
'start' => '36784324',
'end' => '36814400',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-005'
),
'ENST00000510120' => array(
'start' => '36888482',
'end' => '36889307',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'TPT1P8-001'
),
'ENST00000495560' => array(
'start' => '36987977',
'end' => '36988412',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC090453.1-001'
),
'ENST00000518765' => array(
'start' => '37330672',
'end' => '37331984',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.1-002'
),
'ENST00000624599' => array(
'start' => '37326575',
'end' => '37330837',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-527N22.1-001'
),
'ENST00000517363' => array(
'start' => '37475954',
'end' => '37554067',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-002'
),
'ENST00000519738' => array(
'start' => '37450763',
'end' => '37554183',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-001'
),
'ENST00000520422' => array(
'start' => '37421404',
'end' => '37493834',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-004'
),
'ENST00000522718' => array(
'start' => '37421341',
'end' => '37493913',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-003'
),
'ENST00000517897' => array(
'start' => '37480089',
'end' => '37480809',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.2-001'
),
'ENST00000521989' => array(
'start' => '37516410',
'end' => '37517021',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-150O12.6-001'
),
'ENST00000523647' => array(
'start' => '37095150',
'end' => '37095390',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SMARCE1P4-001'
),
'ENST00000520431' => array(
'start' => '37405439',
'end' => '37406724',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.2-001'
),
'ENST00000523411' => array(
'start' => '37067441',
'end' => '37069418',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-419C23.1-001'
),
'ENST00000613126' => array(
'start' => '37173829',
'end' => '37173923',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC068207.1-201'
),
'ENSMUST00000157356' => array(
'start' => '26240150',
'end' => '26240408',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm22227-201'
),
'ENSDART00000118364' => array(
'start' => '26063969',
'end' => '26064087',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.51-201'
)
),
'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_0007LB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007LB_0001' => array(
'genes_in_region' => array(
'ENSG00000215262' => array(
[maximum depth reached]
),
'ENSG00000219491' => array(
[maximum depth reached]
),
'ENSG00000243503' => array(
[maximum depth reached]
),
'ENSG00000253123' => array(
[maximum depth reached]
),
'ENSG00000253161' => array(
[maximum depth reached]
),
'ENSG00000253414' => array(
[maximum depth reached]
),
'ENSG00000253746' => array(
[maximum depth reached]
),
'ENSG00000254038' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Testis',
(int) 4 => 'Brain',
(int) 5 => 'Testis',
(int) 6 => 'Adrenal',
(int) 7 => 'Breast',
(int) 8 => 'Testis',
(int) 9 => 'Adipose',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Heart',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Ovary',
(int) 17 => 'Placenta',
(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 => 'Testis',
(int) 30 => 'Breast',
(int) 31 => 'Heart',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Adipose',
(int) 36 => 'Adrenal',
(int) 37 => 'Brain',
(int) 38 => 'Breast',
(int) 39 => 'Colon',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Testis',
(int) 44 => 'Adrenal',
(int) 45 => 'Brain',
(int) 46 => 'Breast',
(int) 47 => 'Kidney',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Liver',
(int) 57 => 'Lung',
(int) 58 => 'Muscle',
(int) 59 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => 'Testis',
(int) 62 => 'Adrenal',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Ovary',
(int) 66 => 'Testis',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000215262' => 'potassium channel, subfamily U, member 1',
'ENSG00000219491' => 'tumor protein, translationally-controlled 1 pseudogene 8',
'ENSG00000243503' => null,
'ENSG00000253123' => null,
'ENSG00000253161' => null,
'ENSG00000253388' => null,
'ENSG00000253414' => null,
'ENSG00000253650' => 'SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 pseudogene 4',
'ENSG00000253746' => null,
'ENSG00000254038' => null,
'ENSG00000275998' => null,
'ENSMUSG00000087981' => 'predicted gene, 22227',
'ENSDARG00000080569' => '5S ribosomal RNA'
)
$gene_name_arr = array(
'ENSG00000215262' => 'KCNU1',
'ENSG00000219491' => 'TPT1P8',
'ENSG00000243503' => 'AC090453.1',
'ENSG00000253123' => 'RP11-527N22.1',
'ENSG00000253161' => 'RP11-150O12.1',
'ENSG00000253388' => 'RP11-150O12.2',
'ENSG00000253414' => 'RP11-150O12.6',
'ENSG00000253650' => 'SMARCE1P4',
'ENSG00000253746' => 'RP11-527N22.2',
'ENSG00000254038' => 'RP11-419C23.1',
'ENSG00000275998' => 'AC068207.1',
'ENSMUSG00000087981' => 'Gm22227',
'ENSDARG00000080569' => '5S_rRNA'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0001',
'tax_id' => '9606',
'chromosome' => '8',
'seq_start' => '36880130',
'seq_end' => '37521142',
'region_length' => '641012',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '26205767',
'seq_end' => '26808690',
'region_length' => '602923',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '26047459',
'seq_end' => '26135245',
'region_length' => '87786',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Brain',
(int) 15 => 'Breast',
(int) 22 => 'Colon',
(int) 26 => 'Heart',
(int) 31 => 'Kidney',
(int) 34 => 'Liver',
(int) 38 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => 'Ovary',
(int) 53 => 'Placenta',
(int) 59 => '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) 21
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000399881' => array(
'start' => '36784374',
'end' => '36936128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-001'
),
'ENST00000518904' => array(
'start' => '36928905',
'end' => '36931145',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-009'
),
'ENST00000522372' => array(
'start' => '36784383',
'end' => '36936125',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-002'
),
'ENST00000522417' => array(
'start' => '36784399',
'end' => '36807404',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-003'
),
'ENST00000523973' => array(
'start' => '36784324',
'end' => '36814400',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-005'
),
'ENST00000510120' => array(
'start' => '36888482',
'end' => '36889307',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'TPT1P8-001'
),
'ENST00000495560' => array(
'start' => '36987977',
'end' => '36988412',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC090453.1-001'
),
'ENST00000518765' => array(
'start' => '37330672',
'end' => '37331984',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.1-002'
),
'ENST00000624599' => array(
'start' => '37326575',
'end' => '37330837',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-527N22.1-001'
),
'ENST00000517363' => array(
'start' => '37475954',
'end' => '37554067',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-002'
),
'ENST00000519738' => array(
'start' => '37450763',
'end' => '37554183',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-001'
),
'ENST00000520422' => array(
'start' => '37421404',
'end' => '37493834',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-004'
),
'ENST00000522718' => array(
'start' => '37421341',
'end' => '37493913',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-003'
),
'ENST00000517897' => array(
'start' => '37480089',
'end' => '37480809',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.2-001'
),
'ENST00000521989' => array(
'start' => '37516410',
'end' => '37517021',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-150O12.6-001'
),
'ENST00000523647' => array(
'start' => '37095150',
'end' => '37095390',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SMARCE1P4-001'
),
'ENST00000520431' => array(
'start' => '37405439',
'end' => '37406724',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.2-001'
),
'ENST00000523411' => array(
'start' => '37067441',
'end' => '37069418',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-419C23.1-001'
),
'ENST00000613126' => array(
'start' => '37173829',
'end' => '37173923',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC068207.1-201'
),
'ENSMUST00000157356' => array(
'start' => '26240150',
'end' => '26240408',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm22227-201'
),
'ENSDART00000118364' => array(
'start' => '26063969',
'end' => '26064087',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.51-201'
)
)
$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_0007LB_0001' => array(
'genes_in_region' => array(
'ENSG00000215262' => array(
[maximum depth reached]
),
'ENSG00000219491' => array(
[maximum depth reached]
),
'ENSG00000243503' => array(
[maximum depth reached]
),
'ENSG00000253123' => array(
[maximum depth reached]
),
'ENSG00000253161' => array(
[maximum depth reached]
),
'ENSG00000253414' => array(
[maximum depth reached]
),
'ENSG00000253746' => array(
[maximum depth reached]
),
'ENSG00000254038' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Testis',
(int) 4 => 'Brain',
(int) 5 => 'Testis',
(int) 6 => 'Adrenal',
(int) 7 => 'Breast',
(int) 8 => 'Testis',
(int) 9 => 'Adipose',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Heart',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Ovary',
(int) 17 => 'Placenta',
(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 => 'Testis',
(int) 30 => 'Breast',
(int) 31 => 'Heart',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Adipose',
(int) 36 => 'Adrenal',
(int) 37 => 'Brain',
(int) 38 => 'Breast',
(int) 39 => 'Colon',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Testis',
(int) 44 => 'Adrenal',
(int) 45 => 'Brain',
(int) 46 => 'Breast',
(int) 47 => 'Kidney',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Liver',
(int) 57 => 'Lung',
(int) 58 => 'Muscle',
(int) 59 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => 'Testis',
(int) 62 => 'Adrenal',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Ovary',
(int) 66 => 'Testis',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '26205767',
'seq_end' => '26808690',
'region_length' => '602923',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
)
$gene_el = array(
'ENST00000523411' => array(
'Heart' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.075',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.093',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000254038'
$is_first = false
$tran_el = array(
'Heart' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.075',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.093',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000523411'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007LB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000215262' => 'potassium channel, subfamily U, member 1',
'ENSG00000219491' => 'tumor protein, translationally-controlled 1 pseudogene 8',
'ENSG00000243503' => null,
'ENSG00000253123' => null,
'ENSG00000253161' => null,
'ENSG00000253388' => null,
'ENSG00000253414' => null,
'ENSG00000253650' => 'SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 pseudogene 4',
'ENSG00000253746' => null,
'ENSG00000254038' => null,
'ENSG00000275998' => null,
'ENSMUSG00000087981' => 'predicted gene, 22227',
'ENSDARG00000080569' => '5S ribosomal RNA'
),
'gene_name_arr' => array(
'ENSG00000215262' => 'KCNU1',
'ENSG00000219491' => 'TPT1P8',
'ENSG00000243503' => 'AC090453.1',
'ENSG00000253123' => 'RP11-527N22.1',
'ENSG00000253161' => 'RP11-150O12.1',
'ENSG00000253388' => 'RP11-150O12.2',
'ENSG00000253414' => 'RP11-150O12.6',
'ENSG00000253650' => 'SMARCE1P4',
'ENSG00000253746' => 'RP11-527N22.2',
'ENSG00000254038' => 'RP11-419C23.1',
'ENSG00000275998' => 'AC068207.1',
'ENSMUSG00000087981' => 'Gm22227',
'ENSDARG00000080569' => '5S_rRNA'
),
'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) 4 => 'Adrenal',
(int) 9 => 'Brain',
(int) 15 => 'Breast',
(int) 22 => 'Colon',
(int) 26 => 'Heart',
(int) 31 => 'Kidney',
(int) 34 => 'Liver',
(int) 38 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => 'Ovary',
(int) 53 => 'Placenta',
(int) 59 => '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) 21,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000399881' => array(
'start' => '36784374',
'end' => '36936128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-001'
),
'ENST00000518904' => array(
'start' => '36928905',
'end' => '36931145',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-009'
),
'ENST00000522372' => array(
'start' => '36784383',
'end' => '36936125',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-002'
),
'ENST00000522417' => array(
'start' => '36784399',
'end' => '36807404',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-003'
),
'ENST00000523973' => array(
'start' => '36784324',
'end' => '36814400',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-005'
),
'ENST00000510120' => array(
'start' => '36888482',
'end' => '36889307',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'TPT1P8-001'
),
'ENST00000495560' => array(
'start' => '36987977',
'end' => '36988412',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC090453.1-001'
),
'ENST00000518765' => array(
'start' => '37330672',
'end' => '37331984',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.1-002'
),
'ENST00000624599' => array(
'start' => '37326575',
'end' => '37330837',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-527N22.1-001'
),
'ENST00000517363' => array(
'start' => '37475954',
'end' => '37554067',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-002'
),
'ENST00000519738' => array(
'start' => '37450763',
'end' => '37554183',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-001'
),
'ENST00000520422' => array(
'start' => '37421404',
'end' => '37493834',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-004'
),
'ENST00000522718' => array(
'start' => '37421341',
'end' => '37493913',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-003'
),
'ENST00000517897' => array(
'start' => '37480089',
'end' => '37480809',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.2-001'
),
'ENST00000521989' => array(
'start' => '37516410',
'end' => '37517021',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-150O12.6-001'
),
'ENST00000523647' => array(
'start' => '37095150',
'end' => '37095390',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SMARCE1P4-001'
),
'ENST00000520431' => array(
'start' => '37405439',
'end' => '37406724',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.2-001'
),
'ENST00000523411' => array(
'start' => '37067441',
'end' => '37069418',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-419C23.1-001'
),
'ENST00000613126' => array(
'start' => '37173829',
'end' => '37173923',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC068207.1-201'
),
'ENSMUST00000157356' => array(
'start' => '26240150',
'end' => '26240408',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm22227-201'
),
'ENSDART00000118364' => array(
'start' => '26063969',
'end' => '26064087',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.51-201'
)
),
'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_0007LB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007LB_0001' => array(
'genes_in_region' => array(
'ENSG00000215262' => array(
[maximum depth reached]
),
'ENSG00000219491' => array(
[maximum depth reached]
),
'ENSG00000243503' => array(
[maximum depth reached]
),
'ENSG00000253123' => array(
[maximum depth reached]
),
'ENSG00000253161' => array(
[maximum depth reached]
),
'ENSG00000253414' => array(
[maximum depth reached]
),
'ENSG00000253746' => array(
[maximum depth reached]
),
'ENSG00000254038' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Testis',
(int) 4 => 'Brain',
(int) 5 => 'Testis',
(int) 6 => 'Adrenal',
(int) 7 => 'Breast',
(int) 8 => 'Testis',
(int) 9 => 'Adipose',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Heart',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Ovary',
(int) 17 => 'Placenta',
(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 => 'Testis',
(int) 30 => 'Breast',
(int) 31 => 'Heart',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Adipose',
(int) 36 => 'Adrenal',
(int) 37 => 'Brain',
(int) 38 => 'Breast',
(int) 39 => 'Colon',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Testis',
(int) 44 => 'Adrenal',
(int) 45 => 'Brain',
(int) 46 => 'Breast',
(int) 47 => 'Kidney',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Liver',
(int) 57 => 'Lung',
(int) 58 => 'Muscle',
(int) 59 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => 'Testis',
(int) 62 => 'Adrenal',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Ovary',
(int) 66 => 'Testis',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000215262' => 'potassium channel, subfamily U, member 1',
'ENSG00000219491' => 'tumor protein, translationally-controlled 1 pseudogene 8',
'ENSG00000243503' => null,
'ENSG00000253123' => null,
'ENSG00000253161' => null,
'ENSG00000253388' => null,
'ENSG00000253414' => null,
'ENSG00000253650' => 'SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 pseudogene 4',
'ENSG00000253746' => null,
'ENSG00000254038' => null,
'ENSG00000275998' => null,
'ENSMUSG00000087981' => 'predicted gene, 22227',
'ENSDARG00000080569' => '5S ribosomal RNA'
)
$gene_name_arr = array(
'ENSG00000215262' => 'KCNU1',
'ENSG00000219491' => 'TPT1P8',
'ENSG00000243503' => 'AC090453.1',
'ENSG00000253123' => 'RP11-527N22.1',
'ENSG00000253161' => 'RP11-150O12.1',
'ENSG00000253388' => 'RP11-150O12.2',
'ENSG00000253414' => 'RP11-150O12.6',
'ENSG00000253650' => 'SMARCE1P4',
'ENSG00000253746' => 'RP11-527N22.2',
'ENSG00000254038' => 'RP11-419C23.1',
'ENSG00000275998' => 'AC068207.1',
'ENSMUSG00000087981' => 'Gm22227',
'ENSDARG00000080569' => '5S_rRNA'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0001',
'tax_id' => '9606',
'chromosome' => '8',
'seq_start' => '36880130',
'seq_end' => '37521142',
'region_length' => '641012',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '26205767',
'seq_end' => '26808690',
'region_length' => '602923',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '26047459',
'seq_end' => '26135245',
'region_length' => '87786',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Brain',
(int) 15 => 'Breast',
(int) 22 => 'Colon',
(int) 26 => 'Heart',
(int) 31 => 'Kidney',
(int) 34 => 'Liver',
(int) 38 => 'Lung',
(int) 41 => 'Muscle',
(int) 44 => 'Ovary',
(int) 53 => 'Placenta',
(int) 59 => '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) 21
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000399881' => array(
'start' => '36784374',
'end' => '36936128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-001'
),
'ENST00000518904' => array(
'start' => '36928905',
'end' => '36931145',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-009'
),
'ENST00000522372' => array(
'start' => '36784383',
'end' => '36936125',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-002'
),
'ENST00000522417' => array(
'start' => '36784399',
'end' => '36807404',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCNU1-003'
),
'ENST00000523973' => array(
'start' => '36784324',
'end' => '36814400',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCNU1-005'
),
'ENST00000510120' => array(
'start' => '36888482',
'end' => '36889307',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'TPT1P8-001'
),
'ENST00000495560' => array(
'start' => '36987977',
'end' => '36988412',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC090453.1-001'
),
'ENST00000518765' => array(
'start' => '37330672',
'end' => '37331984',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.1-002'
),
'ENST00000624599' => array(
'start' => '37326575',
'end' => '37330837',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-527N22.1-001'
),
'ENST00000517363' => array(
'start' => '37475954',
'end' => '37554067',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-002'
),
'ENST00000519738' => array(
'start' => '37450763',
'end' => '37554183',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-001'
),
'ENST00000520422' => array(
'start' => '37421404',
'end' => '37493834',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-004'
),
'ENST00000522718' => array(
'start' => '37421341',
'end' => '37493913',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.1-003'
),
'ENST00000517897' => array(
'start' => '37480089',
'end' => '37480809',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-150O12.2-001'
),
'ENST00000521989' => array(
'start' => '37516410',
'end' => '37517021',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-150O12.6-001'
),
'ENST00000523647' => array(
'start' => '37095150',
'end' => '37095390',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SMARCE1P4-001'
),
'ENST00000520431' => array(
'start' => '37405439',
'end' => '37406724',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-527N22.2-001'
),
'ENST00000523411' => array(
'start' => '37067441',
'end' => '37069418',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-419C23.1-001'
),
'ENST00000613126' => array(
'start' => '37173829',
'end' => '37173923',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC068207.1-201'
),
'ENSMUST00000157356' => array(
'start' => '26240150',
'end' => '26240408',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm22227-201'
),
'ENSDART00000118364' => array(
'start' => '26063969',
'end' => '26064087',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.51-201'
)
)
$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_0007LB_0001' => array(
'genes_in_region' => array(
'ENSG00000215262' => array(
[maximum depth reached]
),
'ENSG00000219491' => array(
[maximum depth reached]
),
'ENSG00000243503' => array(
[maximum depth reached]
),
'ENSG00000253123' => array(
[maximum depth reached]
),
'ENSG00000253161' => array(
[maximum depth reached]
),
'ENSG00000253414' => array(
[maximum depth reached]
),
'ENSG00000253746' => array(
[maximum depth reached]
),
'ENSG00000254038' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Testis',
(int) 4 => 'Brain',
(int) 5 => 'Testis',
(int) 6 => 'Adrenal',
(int) 7 => 'Breast',
(int) 8 => 'Testis',
(int) 9 => 'Adipose',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Heart',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Ovary',
(int) 17 => 'Placenta',
(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 => 'Testis',
(int) 30 => 'Breast',
(int) 31 => 'Heart',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Adipose',
(int) 36 => 'Adrenal',
(int) 37 => 'Brain',
(int) 38 => 'Breast',
(int) 39 => 'Colon',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Testis',
(int) 44 => 'Adrenal',
(int) 45 => 'Brain',
(int) 46 => 'Breast',
(int) 47 => 'Kidney',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Liver',
(int) 57 => 'Lung',
(int) 58 => 'Muscle',
(int) 59 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => 'Testis',
(int) 62 => 'Adrenal',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Ovary',
(int) 66 => 'Testis',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007LB_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '26205767',
'seq_end' => '26808690',
'region_length' => '602923',
'region_type' => 'UCNEbase',
'el_id' => 'ZNF703'
)
)
$gene_el = array(
'ENST00000523411' => array(
'Heart' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.075',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.093',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000254038'
$is_first = false
$tran_el = array(
'Heart' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.075',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.093',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000523411'
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
(KCNU1)