Notice (8): Undefined index: CIL_0007JE_0004 [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_0007JE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000090060' => 'poly(A) polymerase alpha',
'ENSG00000100749' => 'vaccinia related kinase 1',
'ENSG00000197176' => null,
'ENSG00000223299' => 'RNA, 7SK small nuclear pseudogene 108',
'ENSG00000225163' => 'long intergenic non-protein coding RNA 618',
'ENSG00000246084' => null,
'ENSG00000258393' => null,
'ENSG00000258702' => null,
'ENSG00000258825' => null,
'ENSG00000258979' => null,
'ENSG00000259026' => null,
'ENSG00000259110' => null,
'ENSG00000280070' => null,
'ENSMUSG00000021111' => 'poly (A) polymerase alpha',
'ENSMUSG00000021115' => 'vaccinia related kinase 1',
'ENSMUSG00000077640' => 'predicted gene, 24986',
'ENSMUSG00000085820' => 'RIKEN cDNA 4933406K04 gene',
'ENSMUSG00000091280' => 'predicted gene 17032',
'ENSMUSG00000091442' => 'predicted gene 17031',
'ENSMUSG00000091583' => 'predicted gene 17033',
'ENSMUSG00000091762' => 'predicted gene 3191',
'ENSMUSG00000091887' => 'predicted gene 17053',
'ENSMUSG00000092066' => 'RIKEN cDNA 1700121N20 gene',
'ENSMUSG00000093331' => 'predicted gene, 22120',
'ENSDARG00000018006' => 'vaccinia related kinase 1',
'ENSDARG00000085644' => '5S ribosomal RNA',
'ENSDARG00000089780' => null
),
'gene_name_arr' => array(
'ENSG00000090060' => 'PAPOLA',
'ENSG00000100749' => 'VRK1',
'ENSG00000197176' => 'RP11-76E12.1',
'ENSG00000223299' => 'RN7SKP108',
'ENSG00000225163' => 'LINC00618',
'ENSG00000246084' => 'CTD-2506J14.1',
'ENSG00000258393' => 'RP11-907D1.2',
'ENSG00000258702' => 'RP11-433J8.1',
'ENSG00000258825' => 'AL133168.3',
'ENSG00000258979' => 'RP11-433J8.2',
'ENSG00000259026' => 'RP11-907D1.1',
'ENSG00000259110' => 'RP11-359N5.1',
'ENSG00000280070' => 'RP11-907D1.3',
'ENSMUSG00000021111' => 'Papola',
'ENSMUSG00000021115' => 'Vrk1',
'ENSMUSG00000077640' => 'Gm24986',
'ENSMUSG00000085820' => '4933406K04Rik',
'ENSMUSG00000091280' => 'Gm17032',
'ENSMUSG00000091442' => 'Gm17031',
'ENSMUSG00000091583' => 'Gm17033',
'ENSMUSG00000091762' => 'Gm3191',
'ENSMUSG00000091887' => 'Gm17053',
'ENSMUSG00000092066' => '1700121N20Rik',
'ENSMUSG00000093331' => 'Gm22120',
'ENSDARG00000018006' => 'vrk1',
'ENSDARG00000085644' => '5S_rRNA',
'ENSDARG00000089780' => ''
),
'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]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 22 => 'Bladder',
(int) 28 => 'Brain',
(int) 46 => 'Breast',
(int) 61 => 'Colon',
(int) 71 => 'Heart',
(int) 84 => 'Kidney',
(int) 101 => 'Liver',
(int) 113 => 'Lung',
(int) 125 => 'Muscle',
(int) 139 => 'Ovary',
(int) 156 => 'Placenta',
(int) 177 => '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) 89,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000216277' => array(
'start' => '96502373',
'end' => '96567111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-001'
),
'ENST00000392990' => array(
'start' => '96502558',
'end' => '96565428',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-005'
),
'ENST00000553357' => array(
'start' => '96502382',
'end' => '96532338',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-011'
),
'ENST00000553461' => array(
'start' => '96527442',
'end' => '96534889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-025'
),
'ENST00000553689' => array(
'start' => '96502398',
'end' => '96565048',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-003'
),
'ENST00000553940' => array(
'start' => '96560438',
'end' => '96565059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-021'
),
'ENST00000554130' => array(
'start' => '96502412',
'end' => '96531728',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-012'
),
'ENST00000554135' => array(
'start' => '96547688',
'end' => '96552983',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-019'
),
'ENST00000554666' => array(
'start' => '96536895',
'end' => '96547904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-026'
),
'ENST00000554887' => array(
'start' => '96501433',
'end' => '96527496',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-010'
),
'ENST00000555021' => array(
'start' => '96535525',
'end' => '96537047',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-016'
),
'ENST00000555131' => array(
'start' => '96534223',
'end' => '96537059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-015'
),
'ENST00000555224' => array(
'start' => '96521063',
'end' => '96532696',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-024'
),
'ENST00000555508' => array(
'start' => '96562458',
'end' => '96565106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-022'
),
'ENST00000555626' => array(
'start' => '96502851',
'end' => '96564988',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-006'
),
'ENST00000555701' => array(
'start' => '96542182',
'end' => '96553532',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-009'
),
'ENST00000555912' => array(
'start' => '96525981',
'end' => '96531725',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-007'
),
'ENST00000556248' => array(
'start' => '96504289',
'end' => '96521072',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-014'
),
'ENST00000556283' => array(
'start' => '96542729',
'end' => '96555950',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-018'
),
'ENST00000556459' => array(
'start' => '96547896',
'end' => '96565407',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-020'
),
'ENST00000556619' => array(
'start' => '96502542',
'end' => '96528002',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-013'
),
'ENST00000556787' => array(
'start' => '96541907',
'end' => '96552543',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-017'
),
'ENST00000557320' => array(
'start' => '96502401',
'end' => '96534885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-002'
),
'ENST00000557406' => array(
'start' => '96521016',
'end' => '96531731',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-023'
),
'ENST00000557471' => array(
'start' => '96502441',
'end' => '96532248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-004'
),
'ENST00000216639' => array(
'start' => '96797304',
'end' => '96881613',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-001'
),
'ENST00000553683' => array(
'start' => '96876029',
'end' => '96881259',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-005'
),
'ENST00000555067' => array(
'start' => '96858909',
'end' => '96881391',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-004'
),
'ENST00000555351' => array(
'start' => '96797385',
'end' => '96853055',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'VRK1-002'
),
'ENST00000555402' => array(
'start' => '96877390',
'end' => '96881407',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-007'
),
'ENST00000557222' => array(
'start' => '96852888',
'end' => '96931722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-003'
),
'ENST00000557352' => array(
'start' => '96855304',
'end' => '96860922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-006'
),
'ENST00000355909' => array(
'start' => '97632647',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-001'
),
'ENST00000554197' => array(
'start' => '97646047',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-002'
),
'ENST00000556163' => array(
'start' => '97633344',
'end' => '97686627',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-003'
),
'ENST00000411367' => array(
'start' => '96638187',
'end' => '96638514',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP108-201'
),
'ENST00000435624' => array(
'start' => '96943579',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-001'
),
'ENST00000495064' => array(
'start' => '96943639',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-003'
),
'ENST00000499910' => array(
'start' => '97458870',
'end' => '97464159',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-001'
),
'ENST00000554260' => array(
'start' => '97458831',
'end' => '97469385',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-002'
),
'ENST00000554862' => array(
'start' => '97458816',
'end' => '97581601',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-003'
),
'ENST00000557745' => array(
'start' => '97116355',
'end' => '97121501',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.2-001'
),
'ENST00000553378' => array(
'start' => '96592733',
'end' => '96595762',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-002'
),
'ENST00000555496' => array(
'start' => '96592768',
'end' => '96594760',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-001'
),
'ENST00000557090' => array(
'start' => '96931367',
'end' => '96943580',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'AL133168.3-001'
),
'ENST00000556669' => array(
'start' => '96741191',
'end' => '96790613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.2-001'
),
'ENST00000556773' => array(
'start' => '97117785',
'end' => '97119247',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-002'
),
'ENST00000557211' => array(
'start' => '97110416',
'end' => '97117886',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-001'
),
'ENST00000554445' => array(
'start' => '97154857',
'end' => '97158736',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-359N5.1-001'
),
'ENST00000623920' => array(
'start' => '96992864',
'end' => '96996601',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-907D1.3-001'
),
'ENSMUST00000021535' => array(
'start' => '105784704',
'end' => '105838939',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-003'
),
'ENSMUST00000109901' => array(
'start' => '105784694',
'end' => '105838807',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-001'
),
'ENSMUST00000163473' => array(
'start' => '105784716',
'end' => '105837131',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-009'
),
'ENSMUST00000163805' => array(
'start' => '105799685',
'end' => '105811412',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-006'
),
'ENSMUST00000164326' => array(
'start' => '105784745',
'end' => '105806589',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-014'
),
'ENSMUST00000164798' => array(
'start' => '105812351',
'end' => '105829246',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-019'
),
'ENSMUST00000165584' => array(
'start' => '105784740',
'end' => '105809709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-013'
),
'ENSMUST00000166329' => array(
'start' => '105784738',
'end' => '105836858',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-008'
),
'ENSMUST00000166471' => array(
'start' => '105812300',
'end' => '105837110',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-011'
),
'ENSMUST00000166498' => array(
'start' => '105784733',
'end' => '105814069',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-005'
),
'ENSMUST00000166735' => array(
'start' => '105784757',
'end' => '105809709',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-007'
),
'ENSMUST00000168186' => array(
'start' => '105784704',
'end' => '105834893',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-002'
),
'ENSMUST00000169524' => array(
'start' => '105808614',
'end' => '105820379',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-017'
),
'ENSMUST00000169938' => array(
'start' => '105784743',
'end' => '105838944',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-004'
),
'ENSMUST00000170002' => array(
'start' => '105784872',
'end' => '105837273',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-010'
),
'ENSMUST00000170189' => array(
'start' => '105817880',
'end' => '105818830',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-018'
),
'ENSMUST00000170540' => array(
'start' => '105784746',
'end' => '105809647',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-015'
),
'ENSMUST00000170831' => array(
'start' => '105809324',
'end' => '105809709',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-016'
),
'ENSMUST00000172040' => array(
'start' => '105784711',
'end' => '105809547',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-012'
),
'ENSMUST00000172089' => array(
'start' => '105829067',
'end' => '105835499',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-020'
),
'ENSMUST00000021539' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-201'
),
'ENSMUST00000072040' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-202'
),
'ENSMUST00000085026' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-203'
),
'ENSMUST00000104452' => array(
'start' => '106221075',
'end' => '106221206',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm24986-201'
),
'ENSMUST00000124068' => array(
'start' => '106701159',
'end' => '106716333',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-003'
),
'ENSMUST00000124363' => array(
'start' => '106695716',
'end' => '106716324',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-004'
),
'ENSMUST00000135423' => array(
'start' => '106685607',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-001'
),
'ENSMUST00000149382' => array(
'start' => '106706049',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-002'
),
'ENSMUST00000164367' => array(
'start' => '106327368',
'end' => '106330821',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17032-001'
),
'ENSMUST00000016698' => array(
'start' => '106508242',
'end' => '106509910',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17031-001'
),
'ENSMUST00000146663' => array(
'start' => '106558750',
'end' => '106574924',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17033-001'
),
'ENSMUST00000167139' => array(
'start' => '106459150',
'end' => '106459495',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm3191-001'
),
'ENSMUST00000163501' => array(
'start' => '106544837',
'end' => '106546326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17053-001'
),
'ENSMUST00000167922' => array(
'start' => '106442653',
'end' => '106447666',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700121N20Rik-001'
),
'ENSMUST00000175590' => array(
'start' => '105865724',
'end' => '105865793',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22120-201'
),
'ENSDART00000045991' => array(
'start' => '18604114',
'end' => '18627398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'vrk1-001'
),
'ENSDART00000152111' => array(
'start' => '18604114',
'end' => '18604647',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'vrk1-002'
),
'ENSDART00000121044' => array(
'start' => '18629148',
'end' => '18629284',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1289-201'
),
'ENSDART00000130899' => array(
'start' => '18641057',
'end' => '18702303',
'transcript_biotype' => 'protein_coding',
'transcript_name' => ''
)
),
'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_0007JE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007JE_0001' => array(
'genes_in_region' => array(
'ENSG00000090060' => array(
[maximum depth reached]
),
'ENSG00000100749' => array(
[maximum depth reached]
),
'ENSG00000197176' => array(
[maximum depth reached]
),
'ENSG00000223299' => array(
[maximum depth reached]
),
'ENSG00000246084' => array(
[maximum depth reached]
),
'ENSG00000258702' => array(
[maximum depth reached]
),
'ENSG00000258979' => array(
[maximum depth reached]
),
'ENSG00000259110' => array(
[maximum depth reached]
),
'ENSG00000280070' => 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 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta',
(int) 19 => 'Testis',
(int) 20 => 'Bladder',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Muscle',
(int) 27 => 'Ovary',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Adrenal',
(int) 42 => 'Breast',
(int) 43 => 'Kidney',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Kidney',
(int) 48 => 'Muscle',
(int) 49 => 'Brain',
(int) 50 => 'Adrenal',
(int) 51 => 'Kidney',
(int) 52 => 'Lung',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Adrenal',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Lung',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Brain',
(int) 65 => 'Breast',
(int) 66 => 'Kidney',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Adrenal',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Heart',
(int) 76 => 'Kidney',
(int) 77 => 'Liver',
(int) 78 => 'Lung',
(int) 79 => 'Muscle',
(int) 80 => 'Ovary',
(int) 81 => 'Placenta',
(int) 82 => 'Testis',
(int) 83 => 'Kidney',
(int) 84 => 'Ovary',
(int) 85 => 'Testis',
(int) 86 => 'Testis',
(int) 87 => 'Testis',
(int) 88 => 'Adrenal',
(int) 89 => 'Brain',
(int) 90 => 'Breast',
(int) 91 => 'Colon',
(int) 92 => 'Heart',
(int) 93 => 'Liver',
(int) 94 => 'Lung',
(int) 95 => 'Ovary',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000021115' => array(
[maximum depth reached]
),
'ENSMUSG00000085820' => array(
[maximum depth reached]
),
'ENSMUSG00000091442' => array(
[maximum depth reached]
),
'ENSMUSG00000091583' => array(
[maximum depth reached]
),
'ENSMUSG00000091762' => array(
[maximum depth reached]
),
'ENSMUSG00000092066' => 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 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adrenal',
(int) 23 => 'Placenta',
(int) 24 => 'Adrenal',
(int) 25 => 'Colon',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Placenta',
(int) 41 => 'Brain',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Ovary',
(int) 51 => 'Placenta',
(int) 52 => 'Testis',
(int) 53 => 'Adipose',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Breast',
(int) 58 => 'Colon',
(int) 59 => 'Heart',
(int) 60 => 'Kidney',
(int) 61 => 'Liver',
(int) 62 => 'Lung',
(int) 63 => 'Muscle',
(int) 64 => 'Ovary',
(int) 65 => 'Placenta',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Breast',
(int) 71 => 'Heart',
(int) 72 => 'Kidney',
(int) 73 => 'Liver',
(int) 74 => 'Lung',
(int) 75 => 'Muscle',
(int) 76 => 'Ovary',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Breast',
(int) 80 => 'Testis',
(int) 81 => 'Brain',
(int) 82 => 'Breast',
(int) 83 => 'Heart',
(int) 84 => 'Testis',
(int) 85 => 'Kidney',
(int) 86 => 'Heart',
(int) 87 => 'Testis',
(int) 88 => 'Brain',
(int) 89 => 'Placenta',
(int) 90 => 'Brain',
(int) 91 => 'Testis',
(int) 92 => 'Brain',
(int) 93 => 'Testis',
(int) 94 => 'Brain',
(int) 95 => 'Placenta',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
'ENSDARG00000018006' => array(
[maximum depth reached]
),
'ENSDARG00000085644' => array(
[maximum depth reached]
),
'ENSDARG00000089780' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Kidney',
(int) 6 => 'Muscle',
(int) 7 => 'Muscle',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Kidney',
(int) 11 => 'Liver',
(int) 12 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000090060' => 'poly(A) polymerase alpha',
'ENSG00000100749' => 'vaccinia related kinase 1',
'ENSG00000197176' => null,
'ENSG00000223299' => 'RNA, 7SK small nuclear pseudogene 108',
'ENSG00000225163' => 'long intergenic non-protein coding RNA 618',
'ENSG00000246084' => null,
'ENSG00000258393' => null,
'ENSG00000258702' => null,
'ENSG00000258825' => null,
'ENSG00000258979' => null,
'ENSG00000259026' => null,
'ENSG00000259110' => null,
'ENSG00000280070' => null,
'ENSMUSG00000021111' => 'poly (A) polymerase alpha',
'ENSMUSG00000021115' => 'vaccinia related kinase 1',
'ENSMUSG00000077640' => 'predicted gene, 24986',
'ENSMUSG00000085820' => 'RIKEN cDNA 4933406K04 gene',
'ENSMUSG00000091280' => 'predicted gene 17032',
'ENSMUSG00000091442' => 'predicted gene 17031',
'ENSMUSG00000091583' => 'predicted gene 17033',
'ENSMUSG00000091762' => 'predicted gene 3191',
'ENSMUSG00000091887' => 'predicted gene 17053',
'ENSMUSG00000092066' => 'RIKEN cDNA 1700121N20 gene',
'ENSMUSG00000093331' => 'predicted gene, 22120',
'ENSDARG00000018006' => 'vaccinia related kinase 1',
'ENSDARG00000085644' => '5S ribosomal RNA',
'ENSDARG00000089780' => null
)
$gene_name_arr = array(
'ENSG00000090060' => 'PAPOLA',
'ENSG00000100749' => 'VRK1',
'ENSG00000197176' => 'RP11-76E12.1',
'ENSG00000223299' => 'RN7SKP108',
'ENSG00000225163' => 'LINC00618',
'ENSG00000246084' => 'CTD-2506J14.1',
'ENSG00000258393' => 'RP11-907D1.2',
'ENSG00000258702' => 'RP11-433J8.1',
'ENSG00000258825' => 'AL133168.3',
'ENSG00000258979' => 'RP11-433J8.2',
'ENSG00000259026' => 'RP11-907D1.1',
'ENSG00000259110' => 'RP11-359N5.1',
'ENSG00000280070' => 'RP11-907D1.3',
'ENSMUSG00000021111' => 'Papola',
'ENSMUSG00000021115' => 'Vrk1',
'ENSMUSG00000077640' => 'Gm24986',
'ENSMUSG00000085820' => '4933406K04Rik',
'ENSMUSG00000091280' => 'Gm17032',
'ENSMUSG00000091442' => 'Gm17031',
'ENSMUSG00000091583' => 'Gm17033',
'ENSMUSG00000091762' => 'Gm3191',
'ENSMUSG00000091887' => 'Gm17053',
'ENSMUSG00000092066' => '1700121N20Rik',
'ENSMUSG00000093331' => 'Gm22120',
'ENSDARG00000018006' => 'vrk1',
'ENSDARG00000085644' => '5S_rRNA',
'ENSDARG00000089780' => ''
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0001',
'tax_id' => '9606',
'chromosome' => '14',
'seq_start' => '96566849',
'seq_end' => '97634970',
'region_length' => '1068121',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '105838681',
'seq_end' => '106687937',
'region_length' => '849256',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0003',
'tax_id' => '7955',
'chromosome' => '17',
'seq_start' => '18432902',
'seq_end' => '18679929',
'region_length' => '247027',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '4701838',
'seq_end' => '4739175',
'region_length' => '37337',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 22 => 'Bladder',
(int) 28 => 'Brain',
(int) 46 => 'Breast',
(int) 61 => 'Colon',
(int) 71 => 'Heart',
(int) 84 => 'Kidney',
(int) 101 => 'Liver',
(int) 113 => 'Lung',
(int) 125 => 'Muscle',
(int) 139 => 'Ovary',
(int) 156 => 'Placenta',
(int) 177 => '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) 89
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000216277' => array(
'start' => '96502373',
'end' => '96567111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-001'
),
'ENST00000392990' => array(
'start' => '96502558',
'end' => '96565428',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-005'
),
'ENST00000553357' => array(
'start' => '96502382',
'end' => '96532338',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-011'
),
'ENST00000553461' => array(
'start' => '96527442',
'end' => '96534889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-025'
),
'ENST00000553689' => array(
'start' => '96502398',
'end' => '96565048',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-003'
),
'ENST00000553940' => array(
'start' => '96560438',
'end' => '96565059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-021'
),
'ENST00000554130' => array(
'start' => '96502412',
'end' => '96531728',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-012'
),
'ENST00000554135' => array(
'start' => '96547688',
'end' => '96552983',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-019'
),
'ENST00000554666' => array(
'start' => '96536895',
'end' => '96547904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-026'
),
'ENST00000554887' => array(
'start' => '96501433',
'end' => '96527496',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-010'
),
'ENST00000555021' => array(
'start' => '96535525',
'end' => '96537047',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-016'
),
'ENST00000555131' => array(
'start' => '96534223',
'end' => '96537059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-015'
),
'ENST00000555224' => array(
'start' => '96521063',
'end' => '96532696',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-024'
),
'ENST00000555508' => array(
'start' => '96562458',
'end' => '96565106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-022'
),
'ENST00000555626' => array(
'start' => '96502851',
'end' => '96564988',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-006'
),
'ENST00000555701' => array(
'start' => '96542182',
'end' => '96553532',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-009'
),
'ENST00000555912' => array(
'start' => '96525981',
'end' => '96531725',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-007'
),
'ENST00000556248' => array(
'start' => '96504289',
'end' => '96521072',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-014'
),
'ENST00000556283' => array(
'start' => '96542729',
'end' => '96555950',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-018'
),
'ENST00000556459' => array(
'start' => '96547896',
'end' => '96565407',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-020'
),
'ENST00000556619' => array(
'start' => '96502542',
'end' => '96528002',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-013'
),
'ENST00000556787' => array(
'start' => '96541907',
'end' => '96552543',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-017'
),
'ENST00000557320' => array(
'start' => '96502401',
'end' => '96534885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-002'
),
'ENST00000557406' => array(
'start' => '96521016',
'end' => '96531731',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-023'
),
'ENST00000557471' => array(
'start' => '96502441',
'end' => '96532248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-004'
),
'ENST00000216639' => array(
'start' => '96797304',
'end' => '96881613',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-001'
),
'ENST00000553683' => array(
'start' => '96876029',
'end' => '96881259',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-005'
),
'ENST00000555067' => array(
'start' => '96858909',
'end' => '96881391',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-004'
),
'ENST00000555351' => array(
'start' => '96797385',
'end' => '96853055',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'VRK1-002'
),
'ENST00000555402' => array(
'start' => '96877390',
'end' => '96881407',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-007'
),
'ENST00000557222' => array(
'start' => '96852888',
'end' => '96931722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-003'
),
'ENST00000557352' => array(
'start' => '96855304',
'end' => '96860922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-006'
),
'ENST00000355909' => array(
'start' => '97632647',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-001'
),
'ENST00000554197' => array(
'start' => '97646047',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-002'
),
'ENST00000556163' => array(
'start' => '97633344',
'end' => '97686627',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-003'
),
'ENST00000411367' => array(
'start' => '96638187',
'end' => '96638514',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP108-201'
),
'ENST00000435624' => array(
'start' => '96943579',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-001'
),
'ENST00000495064' => array(
'start' => '96943639',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-003'
),
'ENST00000499910' => array(
'start' => '97458870',
'end' => '97464159',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-001'
),
'ENST00000554260' => array(
'start' => '97458831',
'end' => '97469385',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-002'
),
'ENST00000554862' => array(
'start' => '97458816',
'end' => '97581601',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-003'
),
'ENST00000557745' => array(
'start' => '97116355',
'end' => '97121501',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.2-001'
),
'ENST00000553378' => array(
'start' => '96592733',
'end' => '96595762',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-002'
),
'ENST00000555496' => array(
'start' => '96592768',
'end' => '96594760',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-001'
),
'ENST00000557090' => array(
'start' => '96931367',
'end' => '96943580',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'AL133168.3-001'
),
'ENST00000556669' => array(
'start' => '96741191',
'end' => '96790613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.2-001'
),
'ENST00000556773' => array(
'start' => '97117785',
'end' => '97119247',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-002'
),
'ENST00000557211' => array(
'start' => '97110416',
'end' => '97117886',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-001'
),
'ENST00000554445' => array(
'start' => '97154857',
'end' => '97158736',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-359N5.1-001'
),
'ENST00000623920' => array(
'start' => '96992864',
'end' => '96996601',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-907D1.3-001'
),
'ENSMUST00000021535' => array(
'start' => '105784704',
'end' => '105838939',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-003'
),
'ENSMUST00000109901' => array(
'start' => '105784694',
'end' => '105838807',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-001'
),
'ENSMUST00000163473' => array(
'start' => '105784716',
'end' => '105837131',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-009'
),
'ENSMUST00000163805' => array(
'start' => '105799685',
'end' => '105811412',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-006'
),
'ENSMUST00000164326' => array(
'start' => '105784745',
'end' => '105806589',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-014'
),
'ENSMUST00000164798' => array(
'start' => '105812351',
'end' => '105829246',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-019'
),
'ENSMUST00000165584' => array(
'start' => '105784740',
'end' => '105809709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-013'
),
'ENSMUST00000166329' => array(
'start' => '105784738',
'end' => '105836858',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-008'
),
'ENSMUST00000166471' => array(
'start' => '105812300',
'end' => '105837110',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-011'
),
'ENSMUST00000166498' => array(
'start' => '105784733',
'end' => '105814069',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-005'
),
'ENSMUST00000166735' => array(
'start' => '105784757',
'end' => '105809709',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-007'
),
'ENSMUST00000168186' => array(
'start' => '105784704',
'end' => '105834893',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-002'
),
'ENSMUST00000169524' => array(
'start' => '105808614',
'end' => '105820379',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-017'
),
'ENSMUST00000169938' => array(
'start' => '105784743',
'end' => '105838944',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-004'
),
'ENSMUST00000170002' => array(
'start' => '105784872',
'end' => '105837273',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-010'
),
'ENSMUST00000170189' => array(
'start' => '105817880',
'end' => '105818830',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-018'
),
'ENSMUST00000170540' => array(
'start' => '105784746',
'end' => '105809647',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-015'
),
'ENSMUST00000170831' => array(
'start' => '105809324',
'end' => '105809709',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-016'
),
'ENSMUST00000172040' => array(
'start' => '105784711',
'end' => '105809547',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-012'
),
'ENSMUST00000172089' => array(
'start' => '105829067',
'end' => '105835499',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-020'
),
'ENSMUST00000021539' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-201'
),
'ENSMUST00000072040' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-202'
),
'ENSMUST00000085026' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-203'
),
'ENSMUST00000104452' => array(
'start' => '106221075',
'end' => '106221206',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm24986-201'
),
'ENSMUST00000124068' => array(
'start' => '106701159',
'end' => '106716333',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-003'
),
'ENSMUST00000124363' => array(
'start' => '106695716',
'end' => '106716324',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-004'
),
'ENSMUST00000135423' => array(
'start' => '106685607',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-001'
),
'ENSMUST00000149382' => array(
'start' => '106706049',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-002'
),
'ENSMUST00000164367' => array(
'start' => '106327368',
'end' => '106330821',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17032-001'
),
'ENSMUST00000016698' => array(
'start' => '106508242',
'end' => '106509910',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17031-001'
),
'ENSMUST00000146663' => array(
'start' => '106558750',
'end' => '106574924',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17033-001'
),
'ENSMUST00000167139' => array(
'start' => '106459150',
'end' => '106459495',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm3191-001'
),
'ENSMUST00000163501' => array(
'start' => '106544837',
'end' => '106546326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17053-001'
),
'ENSMUST00000167922' => array(
'start' => '106442653',
'end' => '106447666',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700121N20Rik-001'
),
'ENSMUST00000175590' => array(
'start' => '105865724',
'end' => '105865793',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22120-201'
),
'ENSDART00000045991' => array(
'start' => '18604114',
'end' => '18627398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'vrk1-001'
),
'ENSDART00000152111' => array(
'start' => '18604114',
'end' => '18604647',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'vrk1-002'
),
'ENSDART00000121044' => array(
'start' => '18629148',
'end' => '18629284',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1289-201'
),
'ENSDART00000130899' => array(
'start' => '18641057',
'end' => '18702303',
'transcript_biotype' => 'protein_coding',
'transcript_name' => ''
)
)
$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_0007JE_0001' => array(
'genes_in_region' => array(
'ENSG00000090060' => array(
[maximum depth reached]
),
'ENSG00000100749' => array(
[maximum depth reached]
),
'ENSG00000197176' => array(
[maximum depth reached]
),
'ENSG00000223299' => array(
[maximum depth reached]
),
'ENSG00000246084' => array(
[maximum depth reached]
),
'ENSG00000258702' => array(
[maximum depth reached]
),
'ENSG00000258979' => array(
[maximum depth reached]
),
'ENSG00000259110' => array(
[maximum depth reached]
),
'ENSG00000280070' => 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 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta',
(int) 19 => 'Testis',
(int) 20 => 'Bladder',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Muscle',
(int) 27 => 'Ovary',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Adrenal',
(int) 42 => 'Breast',
(int) 43 => 'Kidney',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Kidney',
(int) 48 => 'Muscle',
(int) 49 => 'Brain',
(int) 50 => 'Adrenal',
(int) 51 => 'Kidney',
(int) 52 => 'Lung',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Adrenal',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Lung',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Brain',
(int) 65 => 'Breast',
(int) 66 => 'Kidney',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Adrenal',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Heart',
(int) 76 => 'Kidney',
(int) 77 => 'Liver',
(int) 78 => 'Lung',
(int) 79 => 'Muscle',
(int) 80 => 'Ovary',
(int) 81 => 'Placenta',
(int) 82 => 'Testis',
(int) 83 => 'Kidney',
(int) 84 => 'Ovary',
(int) 85 => 'Testis',
(int) 86 => 'Testis',
(int) 87 => 'Testis',
(int) 88 => 'Adrenal',
(int) 89 => 'Brain',
(int) 90 => 'Breast',
(int) 91 => 'Colon',
(int) 92 => 'Heart',
(int) 93 => 'Liver',
(int) 94 => 'Lung',
(int) 95 => 'Ovary',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000021115' => array(
[maximum depth reached]
),
'ENSMUSG00000085820' => array(
[maximum depth reached]
),
'ENSMUSG00000091442' => array(
[maximum depth reached]
),
'ENSMUSG00000091583' => array(
[maximum depth reached]
),
'ENSMUSG00000091762' => array(
[maximum depth reached]
),
'ENSMUSG00000092066' => 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 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adrenal',
(int) 23 => 'Placenta',
(int) 24 => 'Adrenal',
(int) 25 => 'Colon',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Placenta',
(int) 41 => 'Brain',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Ovary',
(int) 51 => 'Placenta',
(int) 52 => 'Testis',
(int) 53 => 'Adipose',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Breast',
(int) 58 => 'Colon',
(int) 59 => 'Heart',
(int) 60 => 'Kidney',
(int) 61 => 'Liver',
(int) 62 => 'Lung',
(int) 63 => 'Muscle',
(int) 64 => 'Ovary',
(int) 65 => 'Placenta',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Breast',
(int) 71 => 'Heart',
(int) 72 => 'Kidney',
(int) 73 => 'Liver',
(int) 74 => 'Lung',
(int) 75 => 'Muscle',
(int) 76 => 'Ovary',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Breast',
(int) 80 => 'Testis',
(int) 81 => 'Brain',
(int) 82 => 'Breast',
(int) 83 => 'Heart',
(int) 84 => 'Testis',
(int) 85 => 'Kidney',
(int) 86 => 'Heart',
(int) 87 => 'Testis',
(int) 88 => 'Brain',
(int) 89 => 'Placenta',
(int) 90 => 'Brain',
(int) 91 => 'Testis',
(int) 92 => 'Brain',
(int) 93 => 'Testis',
(int) 94 => 'Brain',
(int) 95 => 'Placenta',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
'ENSDARG00000018006' => array(
[maximum depth reached]
),
'ENSDARG00000085644' => array(
[maximum depth reached]
),
'ENSDARG00000089780' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Kidney',
(int) 6 => 'Muscle',
(int) 7 => 'Muscle',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Kidney',
(int) 11 => 'Liver',
(int) 12 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '4701838',
'seq_end' => '4739175',
'region_length' => '37337',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
)
$gene_el = array(
'ENSDART00000130899' => array(
'Brain' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.08'
),
'Heart' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.265',
'stddev_FPKM' => '0.03'
),
'Liver' => array(
'average_FPKM' => '0.068',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.047',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000089780'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.08'
),
'Heart' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.265',
'stddev_FPKM' => '0.03'
),
'Liver' => array(
'average_FPKM' => '0.068',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.047',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000130899'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007JE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000090060' => 'poly(A) polymerase alpha',
'ENSG00000100749' => 'vaccinia related kinase 1',
'ENSG00000197176' => null,
'ENSG00000223299' => 'RNA, 7SK small nuclear pseudogene 108',
'ENSG00000225163' => 'long intergenic non-protein coding RNA 618',
'ENSG00000246084' => null,
'ENSG00000258393' => null,
'ENSG00000258702' => null,
'ENSG00000258825' => null,
'ENSG00000258979' => null,
'ENSG00000259026' => null,
'ENSG00000259110' => null,
'ENSG00000280070' => null,
'ENSMUSG00000021111' => 'poly (A) polymerase alpha',
'ENSMUSG00000021115' => 'vaccinia related kinase 1',
'ENSMUSG00000077640' => 'predicted gene, 24986',
'ENSMUSG00000085820' => 'RIKEN cDNA 4933406K04 gene',
'ENSMUSG00000091280' => 'predicted gene 17032',
'ENSMUSG00000091442' => 'predicted gene 17031',
'ENSMUSG00000091583' => 'predicted gene 17033',
'ENSMUSG00000091762' => 'predicted gene 3191',
'ENSMUSG00000091887' => 'predicted gene 17053',
'ENSMUSG00000092066' => 'RIKEN cDNA 1700121N20 gene',
'ENSMUSG00000093331' => 'predicted gene, 22120',
'ENSDARG00000018006' => 'vaccinia related kinase 1',
'ENSDARG00000085644' => '5S ribosomal RNA',
'ENSDARG00000089780' => null
),
'gene_name_arr' => array(
'ENSG00000090060' => 'PAPOLA',
'ENSG00000100749' => 'VRK1',
'ENSG00000197176' => 'RP11-76E12.1',
'ENSG00000223299' => 'RN7SKP108',
'ENSG00000225163' => 'LINC00618',
'ENSG00000246084' => 'CTD-2506J14.1',
'ENSG00000258393' => 'RP11-907D1.2',
'ENSG00000258702' => 'RP11-433J8.1',
'ENSG00000258825' => 'AL133168.3',
'ENSG00000258979' => 'RP11-433J8.2',
'ENSG00000259026' => 'RP11-907D1.1',
'ENSG00000259110' => 'RP11-359N5.1',
'ENSG00000280070' => 'RP11-907D1.3',
'ENSMUSG00000021111' => 'Papola',
'ENSMUSG00000021115' => 'Vrk1',
'ENSMUSG00000077640' => 'Gm24986',
'ENSMUSG00000085820' => '4933406K04Rik',
'ENSMUSG00000091280' => 'Gm17032',
'ENSMUSG00000091442' => 'Gm17031',
'ENSMUSG00000091583' => 'Gm17033',
'ENSMUSG00000091762' => 'Gm3191',
'ENSMUSG00000091887' => 'Gm17053',
'ENSMUSG00000092066' => '1700121N20Rik',
'ENSMUSG00000093331' => 'Gm22120',
'ENSDARG00000018006' => 'vrk1',
'ENSDARG00000085644' => '5S_rRNA',
'ENSDARG00000089780' => ''
),
'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]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 22 => 'Bladder',
(int) 28 => 'Brain',
(int) 46 => 'Breast',
(int) 61 => 'Colon',
(int) 71 => 'Heart',
(int) 84 => 'Kidney',
(int) 101 => 'Liver',
(int) 113 => 'Lung',
(int) 125 => 'Muscle',
(int) 139 => 'Ovary',
(int) 156 => 'Placenta',
(int) 177 => '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) 89,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000216277' => array(
'start' => '96502373',
'end' => '96567111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-001'
),
'ENST00000392990' => array(
'start' => '96502558',
'end' => '96565428',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-005'
),
'ENST00000553357' => array(
'start' => '96502382',
'end' => '96532338',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-011'
),
'ENST00000553461' => array(
'start' => '96527442',
'end' => '96534889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-025'
),
'ENST00000553689' => array(
'start' => '96502398',
'end' => '96565048',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-003'
),
'ENST00000553940' => array(
'start' => '96560438',
'end' => '96565059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-021'
),
'ENST00000554130' => array(
'start' => '96502412',
'end' => '96531728',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-012'
),
'ENST00000554135' => array(
'start' => '96547688',
'end' => '96552983',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-019'
),
'ENST00000554666' => array(
'start' => '96536895',
'end' => '96547904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-026'
),
'ENST00000554887' => array(
'start' => '96501433',
'end' => '96527496',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-010'
),
'ENST00000555021' => array(
'start' => '96535525',
'end' => '96537047',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-016'
),
'ENST00000555131' => array(
'start' => '96534223',
'end' => '96537059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-015'
),
'ENST00000555224' => array(
'start' => '96521063',
'end' => '96532696',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-024'
),
'ENST00000555508' => array(
'start' => '96562458',
'end' => '96565106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-022'
),
'ENST00000555626' => array(
'start' => '96502851',
'end' => '96564988',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-006'
),
'ENST00000555701' => array(
'start' => '96542182',
'end' => '96553532',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-009'
),
'ENST00000555912' => array(
'start' => '96525981',
'end' => '96531725',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-007'
),
'ENST00000556248' => array(
'start' => '96504289',
'end' => '96521072',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-014'
),
'ENST00000556283' => array(
'start' => '96542729',
'end' => '96555950',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-018'
),
'ENST00000556459' => array(
'start' => '96547896',
'end' => '96565407',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-020'
),
'ENST00000556619' => array(
'start' => '96502542',
'end' => '96528002',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-013'
),
'ENST00000556787' => array(
'start' => '96541907',
'end' => '96552543',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-017'
),
'ENST00000557320' => array(
'start' => '96502401',
'end' => '96534885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-002'
),
'ENST00000557406' => array(
'start' => '96521016',
'end' => '96531731',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-023'
),
'ENST00000557471' => array(
'start' => '96502441',
'end' => '96532248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-004'
),
'ENST00000216639' => array(
'start' => '96797304',
'end' => '96881613',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-001'
),
'ENST00000553683' => array(
'start' => '96876029',
'end' => '96881259',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-005'
),
'ENST00000555067' => array(
'start' => '96858909',
'end' => '96881391',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-004'
),
'ENST00000555351' => array(
'start' => '96797385',
'end' => '96853055',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'VRK1-002'
),
'ENST00000555402' => array(
'start' => '96877390',
'end' => '96881407',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-007'
),
'ENST00000557222' => array(
'start' => '96852888',
'end' => '96931722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-003'
),
'ENST00000557352' => array(
'start' => '96855304',
'end' => '96860922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-006'
),
'ENST00000355909' => array(
'start' => '97632647',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-001'
),
'ENST00000554197' => array(
'start' => '97646047',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-002'
),
'ENST00000556163' => array(
'start' => '97633344',
'end' => '97686627',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-003'
),
'ENST00000411367' => array(
'start' => '96638187',
'end' => '96638514',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP108-201'
),
'ENST00000435624' => array(
'start' => '96943579',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-001'
),
'ENST00000495064' => array(
'start' => '96943639',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-003'
),
'ENST00000499910' => array(
'start' => '97458870',
'end' => '97464159',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-001'
),
'ENST00000554260' => array(
'start' => '97458831',
'end' => '97469385',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-002'
),
'ENST00000554862' => array(
'start' => '97458816',
'end' => '97581601',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-003'
),
'ENST00000557745' => array(
'start' => '97116355',
'end' => '97121501',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.2-001'
),
'ENST00000553378' => array(
'start' => '96592733',
'end' => '96595762',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-002'
),
'ENST00000555496' => array(
'start' => '96592768',
'end' => '96594760',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-001'
),
'ENST00000557090' => array(
'start' => '96931367',
'end' => '96943580',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'AL133168.3-001'
),
'ENST00000556669' => array(
'start' => '96741191',
'end' => '96790613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.2-001'
),
'ENST00000556773' => array(
'start' => '97117785',
'end' => '97119247',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-002'
),
'ENST00000557211' => array(
'start' => '97110416',
'end' => '97117886',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-001'
),
'ENST00000554445' => array(
'start' => '97154857',
'end' => '97158736',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-359N5.1-001'
),
'ENST00000623920' => array(
'start' => '96992864',
'end' => '96996601',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-907D1.3-001'
),
'ENSMUST00000021535' => array(
'start' => '105784704',
'end' => '105838939',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-003'
),
'ENSMUST00000109901' => array(
'start' => '105784694',
'end' => '105838807',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-001'
),
'ENSMUST00000163473' => array(
'start' => '105784716',
'end' => '105837131',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-009'
),
'ENSMUST00000163805' => array(
'start' => '105799685',
'end' => '105811412',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-006'
),
'ENSMUST00000164326' => array(
'start' => '105784745',
'end' => '105806589',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-014'
),
'ENSMUST00000164798' => array(
'start' => '105812351',
'end' => '105829246',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-019'
),
'ENSMUST00000165584' => array(
'start' => '105784740',
'end' => '105809709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-013'
),
'ENSMUST00000166329' => array(
'start' => '105784738',
'end' => '105836858',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-008'
),
'ENSMUST00000166471' => array(
'start' => '105812300',
'end' => '105837110',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-011'
),
'ENSMUST00000166498' => array(
'start' => '105784733',
'end' => '105814069',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-005'
),
'ENSMUST00000166735' => array(
'start' => '105784757',
'end' => '105809709',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-007'
),
'ENSMUST00000168186' => array(
'start' => '105784704',
'end' => '105834893',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-002'
),
'ENSMUST00000169524' => array(
'start' => '105808614',
'end' => '105820379',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-017'
),
'ENSMUST00000169938' => array(
'start' => '105784743',
'end' => '105838944',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-004'
),
'ENSMUST00000170002' => array(
'start' => '105784872',
'end' => '105837273',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-010'
),
'ENSMUST00000170189' => array(
'start' => '105817880',
'end' => '105818830',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-018'
),
'ENSMUST00000170540' => array(
'start' => '105784746',
'end' => '105809647',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-015'
),
'ENSMUST00000170831' => array(
'start' => '105809324',
'end' => '105809709',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-016'
),
'ENSMUST00000172040' => array(
'start' => '105784711',
'end' => '105809547',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-012'
),
'ENSMUST00000172089' => array(
'start' => '105829067',
'end' => '105835499',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-020'
),
'ENSMUST00000021539' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-201'
),
'ENSMUST00000072040' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-202'
),
'ENSMUST00000085026' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-203'
),
'ENSMUST00000104452' => array(
'start' => '106221075',
'end' => '106221206',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm24986-201'
),
'ENSMUST00000124068' => array(
'start' => '106701159',
'end' => '106716333',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-003'
),
'ENSMUST00000124363' => array(
'start' => '106695716',
'end' => '106716324',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-004'
),
'ENSMUST00000135423' => array(
'start' => '106685607',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-001'
),
'ENSMUST00000149382' => array(
'start' => '106706049',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-002'
),
'ENSMUST00000164367' => array(
'start' => '106327368',
'end' => '106330821',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17032-001'
),
'ENSMUST00000016698' => array(
'start' => '106508242',
'end' => '106509910',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17031-001'
),
'ENSMUST00000146663' => array(
'start' => '106558750',
'end' => '106574924',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17033-001'
),
'ENSMUST00000167139' => array(
'start' => '106459150',
'end' => '106459495',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm3191-001'
),
'ENSMUST00000163501' => array(
'start' => '106544837',
'end' => '106546326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17053-001'
),
'ENSMUST00000167922' => array(
'start' => '106442653',
'end' => '106447666',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700121N20Rik-001'
),
'ENSMUST00000175590' => array(
'start' => '105865724',
'end' => '105865793',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22120-201'
),
'ENSDART00000045991' => array(
'start' => '18604114',
'end' => '18627398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'vrk1-001'
),
'ENSDART00000152111' => array(
'start' => '18604114',
'end' => '18604647',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'vrk1-002'
),
'ENSDART00000121044' => array(
'start' => '18629148',
'end' => '18629284',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1289-201'
),
'ENSDART00000130899' => array(
'start' => '18641057',
'end' => '18702303',
'transcript_biotype' => 'protein_coding',
'transcript_name' => ''
)
),
'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_0007JE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007JE_0001' => array(
'genes_in_region' => array(
'ENSG00000090060' => array(
[maximum depth reached]
),
'ENSG00000100749' => array(
[maximum depth reached]
),
'ENSG00000197176' => array(
[maximum depth reached]
),
'ENSG00000223299' => array(
[maximum depth reached]
),
'ENSG00000246084' => array(
[maximum depth reached]
),
'ENSG00000258702' => array(
[maximum depth reached]
),
'ENSG00000258979' => array(
[maximum depth reached]
),
'ENSG00000259110' => array(
[maximum depth reached]
),
'ENSG00000280070' => 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 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta',
(int) 19 => 'Testis',
(int) 20 => 'Bladder',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Muscle',
(int) 27 => 'Ovary',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Adrenal',
(int) 42 => 'Breast',
(int) 43 => 'Kidney',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Kidney',
(int) 48 => 'Muscle',
(int) 49 => 'Brain',
(int) 50 => 'Adrenal',
(int) 51 => 'Kidney',
(int) 52 => 'Lung',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Adrenal',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Lung',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Brain',
(int) 65 => 'Breast',
(int) 66 => 'Kidney',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Adrenal',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Heart',
(int) 76 => 'Kidney',
(int) 77 => 'Liver',
(int) 78 => 'Lung',
(int) 79 => 'Muscle',
(int) 80 => 'Ovary',
(int) 81 => 'Placenta',
(int) 82 => 'Testis',
(int) 83 => 'Kidney',
(int) 84 => 'Ovary',
(int) 85 => 'Testis',
(int) 86 => 'Testis',
(int) 87 => 'Testis',
(int) 88 => 'Adrenal',
(int) 89 => 'Brain',
(int) 90 => 'Breast',
(int) 91 => 'Colon',
(int) 92 => 'Heart',
(int) 93 => 'Liver',
(int) 94 => 'Lung',
(int) 95 => 'Ovary',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000021115' => array(
[maximum depth reached]
),
'ENSMUSG00000085820' => array(
[maximum depth reached]
),
'ENSMUSG00000091442' => array(
[maximum depth reached]
),
'ENSMUSG00000091583' => array(
[maximum depth reached]
),
'ENSMUSG00000091762' => array(
[maximum depth reached]
),
'ENSMUSG00000092066' => 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 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adrenal',
(int) 23 => 'Placenta',
(int) 24 => 'Adrenal',
(int) 25 => 'Colon',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Placenta',
(int) 41 => 'Brain',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Ovary',
(int) 51 => 'Placenta',
(int) 52 => 'Testis',
(int) 53 => 'Adipose',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Breast',
(int) 58 => 'Colon',
(int) 59 => 'Heart',
(int) 60 => 'Kidney',
(int) 61 => 'Liver',
(int) 62 => 'Lung',
(int) 63 => 'Muscle',
(int) 64 => 'Ovary',
(int) 65 => 'Placenta',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Breast',
(int) 71 => 'Heart',
(int) 72 => 'Kidney',
(int) 73 => 'Liver',
(int) 74 => 'Lung',
(int) 75 => 'Muscle',
(int) 76 => 'Ovary',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Breast',
(int) 80 => 'Testis',
(int) 81 => 'Brain',
(int) 82 => 'Breast',
(int) 83 => 'Heart',
(int) 84 => 'Testis',
(int) 85 => 'Kidney',
(int) 86 => 'Heart',
(int) 87 => 'Testis',
(int) 88 => 'Brain',
(int) 89 => 'Placenta',
(int) 90 => 'Brain',
(int) 91 => 'Testis',
(int) 92 => 'Brain',
(int) 93 => 'Testis',
(int) 94 => 'Brain',
(int) 95 => 'Placenta',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
'ENSDARG00000018006' => array(
[maximum depth reached]
),
'ENSDARG00000085644' => array(
[maximum depth reached]
),
'ENSDARG00000089780' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Kidney',
(int) 6 => 'Muscle',
(int) 7 => 'Muscle',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Kidney',
(int) 11 => 'Liver',
(int) 12 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000090060' => 'poly(A) polymerase alpha',
'ENSG00000100749' => 'vaccinia related kinase 1',
'ENSG00000197176' => null,
'ENSG00000223299' => 'RNA, 7SK small nuclear pseudogene 108',
'ENSG00000225163' => 'long intergenic non-protein coding RNA 618',
'ENSG00000246084' => null,
'ENSG00000258393' => null,
'ENSG00000258702' => null,
'ENSG00000258825' => null,
'ENSG00000258979' => null,
'ENSG00000259026' => null,
'ENSG00000259110' => null,
'ENSG00000280070' => null,
'ENSMUSG00000021111' => 'poly (A) polymerase alpha',
'ENSMUSG00000021115' => 'vaccinia related kinase 1',
'ENSMUSG00000077640' => 'predicted gene, 24986',
'ENSMUSG00000085820' => 'RIKEN cDNA 4933406K04 gene',
'ENSMUSG00000091280' => 'predicted gene 17032',
'ENSMUSG00000091442' => 'predicted gene 17031',
'ENSMUSG00000091583' => 'predicted gene 17033',
'ENSMUSG00000091762' => 'predicted gene 3191',
'ENSMUSG00000091887' => 'predicted gene 17053',
'ENSMUSG00000092066' => 'RIKEN cDNA 1700121N20 gene',
'ENSMUSG00000093331' => 'predicted gene, 22120',
'ENSDARG00000018006' => 'vaccinia related kinase 1',
'ENSDARG00000085644' => '5S ribosomal RNA',
'ENSDARG00000089780' => null
)
$gene_name_arr = array(
'ENSG00000090060' => 'PAPOLA',
'ENSG00000100749' => 'VRK1',
'ENSG00000197176' => 'RP11-76E12.1',
'ENSG00000223299' => 'RN7SKP108',
'ENSG00000225163' => 'LINC00618',
'ENSG00000246084' => 'CTD-2506J14.1',
'ENSG00000258393' => 'RP11-907D1.2',
'ENSG00000258702' => 'RP11-433J8.1',
'ENSG00000258825' => 'AL133168.3',
'ENSG00000258979' => 'RP11-433J8.2',
'ENSG00000259026' => 'RP11-907D1.1',
'ENSG00000259110' => 'RP11-359N5.1',
'ENSG00000280070' => 'RP11-907D1.3',
'ENSMUSG00000021111' => 'Papola',
'ENSMUSG00000021115' => 'Vrk1',
'ENSMUSG00000077640' => 'Gm24986',
'ENSMUSG00000085820' => '4933406K04Rik',
'ENSMUSG00000091280' => 'Gm17032',
'ENSMUSG00000091442' => 'Gm17031',
'ENSMUSG00000091583' => 'Gm17033',
'ENSMUSG00000091762' => 'Gm3191',
'ENSMUSG00000091887' => 'Gm17053',
'ENSMUSG00000092066' => '1700121N20Rik',
'ENSMUSG00000093331' => 'Gm22120',
'ENSDARG00000018006' => 'vrk1',
'ENSDARG00000085644' => '5S_rRNA',
'ENSDARG00000089780' => ''
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0001',
'tax_id' => '9606',
'chromosome' => '14',
'seq_start' => '96566849',
'seq_end' => '97634970',
'region_length' => '1068121',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '105838681',
'seq_end' => '106687937',
'region_length' => '849256',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0003',
'tax_id' => '7955',
'chromosome' => '17',
'seq_start' => '18432902',
'seq_end' => '18679929',
'region_length' => '247027',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '4701838',
'seq_end' => '4739175',
'region_length' => '37337',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 22 => 'Bladder',
(int) 28 => 'Brain',
(int) 46 => 'Breast',
(int) 61 => 'Colon',
(int) 71 => 'Heart',
(int) 84 => 'Kidney',
(int) 101 => 'Liver',
(int) 113 => 'Lung',
(int) 125 => 'Muscle',
(int) 139 => 'Ovary',
(int) 156 => 'Placenta',
(int) 177 => '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) 89
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000216277' => array(
'start' => '96502373',
'end' => '96567111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-001'
),
'ENST00000392990' => array(
'start' => '96502558',
'end' => '96565428',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-005'
),
'ENST00000553357' => array(
'start' => '96502382',
'end' => '96532338',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-011'
),
'ENST00000553461' => array(
'start' => '96527442',
'end' => '96534889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-025'
),
'ENST00000553689' => array(
'start' => '96502398',
'end' => '96565048',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PAPOLA-003'
),
'ENST00000553940' => array(
'start' => '96560438',
'end' => '96565059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-021'
),
'ENST00000554130' => array(
'start' => '96502412',
'end' => '96531728',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-012'
),
'ENST00000554135' => array(
'start' => '96547688',
'end' => '96552983',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-019'
),
'ENST00000554666' => array(
'start' => '96536895',
'end' => '96547904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-026'
),
'ENST00000554887' => array(
'start' => '96501433',
'end' => '96527496',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-010'
),
'ENST00000555021' => array(
'start' => '96535525',
'end' => '96537047',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-016'
),
'ENST00000555131' => array(
'start' => '96534223',
'end' => '96537059',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-015'
),
'ENST00000555224' => array(
'start' => '96521063',
'end' => '96532696',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-024'
),
'ENST00000555508' => array(
'start' => '96562458',
'end' => '96565106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-022'
),
'ENST00000555626' => array(
'start' => '96502851',
'end' => '96564988',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-006'
),
'ENST00000555701' => array(
'start' => '96542182',
'end' => '96553532',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-009'
),
'ENST00000555912' => array(
'start' => '96525981',
'end' => '96531725',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-007'
),
'ENST00000556248' => array(
'start' => '96504289',
'end' => '96521072',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PAPOLA-014'
),
'ENST00000556283' => array(
'start' => '96542729',
'end' => '96555950',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-018'
),
'ENST00000556459' => array(
'start' => '96547896',
'end' => '96565407',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-020'
),
'ENST00000556619' => array(
'start' => '96502542',
'end' => '96528002',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-013'
),
'ENST00000556787' => array(
'start' => '96541907',
'end' => '96552543',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-017'
),
'ENST00000557320' => array(
'start' => '96502401',
'end' => '96534885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-002'
),
'ENST00000557406' => array(
'start' => '96521016',
'end' => '96531731',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PAPOLA-023'
),
'ENST00000557471' => array(
'start' => '96502441',
'end' => '96532248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PAPOLA-004'
),
'ENST00000216639' => array(
'start' => '96797304',
'end' => '96881613',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-001'
),
'ENST00000553683' => array(
'start' => '96876029',
'end' => '96881259',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-005'
),
'ENST00000555067' => array(
'start' => '96858909',
'end' => '96881391',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-004'
),
'ENST00000555351' => array(
'start' => '96797385',
'end' => '96853055',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'VRK1-002'
),
'ENST00000555402' => array(
'start' => '96877390',
'end' => '96881407',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'VRK1-007'
),
'ENST00000557222' => array(
'start' => '96852888',
'end' => '96931722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-003'
),
'ENST00000557352' => array(
'start' => '96855304',
'end' => '96860922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'VRK1-006'
),
'ENST00000355909' => array(
'start' => '97632647',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-001'
),
'ENST00000554197' => array(
'start' => '97646047',
'end' => '97686658',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-002'
),
'ENST00000556163' => array(
'start' => '97633344',
'end' => '97686627',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-76E12.1-003'
),
'ENST00000411367' => array(
'start' => '96638187',
'end' => '96638514',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP108-201'
),
'ENST00000435624' => array(
'start' => '96943579',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-001'
),
'ENST00000495064' => array(
'start' => '96943639',
'end' => '96945394',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00618-003'
),
'ENST00000499910' => array(
'start' => '97458870',
'end' => '97464159',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-001'
),
'ENST00000554260' => array(
'start' => '97458831',
'end' => '97469385',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-002'
),
'ENST00000554862' => array(
'start' => '97458816',
'end' => '97581601',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2506J14.1-003'
),
'ENST00000557745' => array(
'start' => '97116355',
'end' => '97121501',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.2-001'
),
'ENST00000553378' => array(
'start' => '96592733',
'end' => '96595762',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-002'
),
'ENST00000555496' => array(
'start' => '96592768',
'end' => '96594760',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.1-001'
),
'ENST00000557090' => array(
'start' => '96931367',
'end' => '96943580',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'AL133168.3-001'
),
'ENST00000556669' => array(
'start' => '96741191',
'end' => '96790613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-433J8.2-001'
),
'ENST00000556773' => array(
'start' => '97117785',
'end' => '97119247',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-002'
),
'ENST00000557211' => array(
'start' => '97110416',
'end' => '97117886',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-907D1.1-001'
),
'ENST00000554445' => array(
'start' => '97154857',
'end' => '97158736',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-359N5.1-001'
),
'ENST00000623920' => array(
'start' => '96992864',
'end' => '96996601',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-907D1.3-001'
),
'ENSMUST00000021535' => array(
'start' => '105784704',
'end' => '105838939',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-003'
),
'ENSMUST00000109901' => array(
'start' => '105784694',
'end' => '105838807',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-001'
),
'ENSMUST00000163473' => array(
'start' => '105784716',
'end' => '105837131',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-009'
),
'ENSMUST00000163805' => array(
'start' => '105799685',
'end' => '105811412',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-006'
),
'ENSMUST00000164326' => array(
'start' => '105784745',
'end' => '105806589',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-014'
),
'ENSMUST00000164798' => array(
'start' => '105812351',
'end' => '105829246',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-019'
),
'ENSMUST00000165584' => array(
'start' => '105784740',
'end' => '105809709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-013'
),
'ENSMUST00000166329' => array(
'start' => '105784738',
'end' => '105836858',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-008'
),
'ENSMUST00000166471' => array(
'start' => '105812300',
'end' => '105837110',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-011'
),
'ENSMUST00000166498' => array(
'start' => '105784733',
'end' => '105814069',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-005'
),
'ENSMUST00000166735' => array(
'start' => '105784757',
'end' => '105809709',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-007'
),
'ENSMUST00000168186' => array(
'start' => '105784704',
'end' => '105834893',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-002'
),
'ENSMUST00000169524' => array(
'start' => '105808614',
'end' => '105820379',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-017'
),
'ENSMUST00000169938' => array(
'start' => '105784743',
'end' => '105838944',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Papola-004'
),
'ENSMUST00000170002' => array(
'start' => '105784872',
'end' => '105837273',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-010'
),
'ENSMUST00000170189' => array(
'start' => '105817880',
'end' => '105818830',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-018'
),
'ENSMUST00000170540' => array(
'start' => '105784746',
'end' => '105809647',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-015'
),
'ENSMUST00000170831' => array(
'start' => '105809324',
'end' => '105809709',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Papola-016'
),
'ENSMUST00000172040' => array(
'start' => '105784711',
'end' => '105809547',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Papola-012'
),
'ENSMUST00000172089' => array(
'start' => '105829067',
'end' => '105835499',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Papola-020'
),
'ENSMUST00000021539' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-201'
),
'ENSMUST00000072040' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-202'
),
'ENSMUST00000085026' => array(
'start' => '106010263',
'end' => '106077410',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Vrk1-203'
),
'ENSMUST00000104452' => array(
'start' => '106221075',
'end' => '106221206',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm24986-201'
),
'ENSMUST00000124068' => array(
'start' => '106701159',
'end' => '106716333',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-003'
),
'ENSMUST00000124363' => array(
'start' => '106695716',
'end' => '106716324',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-004'
),
'ENSMUST00000135423' => array(
'start' => '106685607',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-001'
),
'ENSMUST00000149382' => array(
'start' => '106706049',
'end' => '106716362',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '4933406K04Rik-002'
),
'ENSMUST00000164367' => array(
'start' => '106327368',
'end' => '106330821',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17032-001'
),
'ENSMUST00000016698' => array(
'start' => '106508242',
'end' => '106509910',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17031-001'
),
'ENSMUST00000146663' => array(
'start' => '106558750',
'end' => '106574924',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm17033-001'
),
'ENSMUST00000167139' => array(
'start' => '106459150',
'end' => '106459495',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm3191-001'
),
'ENSMUST00000163501' => array(
'start' => '106544837',
'end' => '106546326',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm17053-001'
),
'ENSMUST00000167922' => array(
'start' => '106442653',
'end' => '106447666',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700121N20Rik-001'
),
'ENSMUST00000175590' => array(
'start' => '105865724',
'end' => '105865793',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm22120-201'
),
'ENSDART00000045991' => array(
'start' => '18604114',
'end' => '18627398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'vrk1-001'
),
'ENSDART00000152111' => array(
'start' => '18604114',
'end' => '18604647',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'vrk1-002'
),
'ENSDART00000121044' => array(
'start' => '18629148',
'end' => '18629284',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1289-201'
),
'ENSDART00000130899' => array(
'start' => '18641057',
'end' => '18702303',
'transcript_biotype' => 'protein_coding',
'transcript_name' => ''
)
)
$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_0007JE_0001' => array(
'genes_in_region' => array(
'ENSG00000090060' => array(
[maximum depth reached]
),
'ENSG00000100749' => array(
[maximum depth reached]
),
'ENSG00000197176' => array(
[maximum depth reached]
),
'ENSG00000223299' => array(
[maximum depth reached]
),
'ENSG00000246084' => array(
[maximum depth reached]
),
'ENSG00000258702' => array(
[maximum depth reached]
),
'ENSG00000258979' => array(
[maximum depth reached]
),
'ENSG00000259110' => array(
[maximum depth reached]
),
'ENSG00000280070' => 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 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta',
(int) 19 => 'Testis',
(int) 20 => 'Bladder',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Muscle',
(int) 27 => 'Ovary',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Adrenal',
(int) 42 => 'Breast',
(int) 43 => 'Kidney',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Kidney',
(int) 48 => 'Muscle',
(int) 49 => 'Brain',
(int) 50 => 'Adrenal',
(int) 51 => 'Kidney',
(int) 52 => 'Lung',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Adrenal',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Lung',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Brain',
(int) 65 => 'Breast',
(int) 66 => 'Kidney',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Adrenal',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Heart',
(int) 76 => 'Kidney',
(int) 77 => 'Liver',
(int) 78 => 'Lung',
(int) 79 => 'Muscle',
(int) 80 => 'Ovary',
(int) 81 => 'Placenta',
(int) 82 => 'Testis',
(int) 83 => 'Kidney',
(int) 84 => 'Ovary',
(int) 85 => 'Testis',
(int) 86 => 'Testis',
(int) 87 => 'Testis',
(int) 88 => 'Adrenal',
(int) 89 => 'Brain',
(int) 90 => 'Breast',
(int) 91 => 'Colon',
(int) 92 => 'Heart',
(int) 93 => 'Liver',
(int) 94 => 'Lung',
(int) 95 => 'Ovary',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000021115' => array(
[maximum depth reached]
),
'ENSMUSG00000085820' => array(
[maximum depth reached]
),
'ENSMUSG00000091442' => array(
[maximum depth reached]
),
'ENSMUSG00000091583' => array(
[maximum depth reached]
),
'ENSMUSG00000091762' => array(
[maximum depth reached]
),
'ENSMUSG00000092066' => 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 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Lung',
(int) 19 => 'Ovary',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adrenal',
(int) 23 => 'Placenta',
(int) 24 => 'Adrenal',
(int) 25 => 'Colon',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Placenta',
(int) 41 => 'Brain',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Ovary',
(int) 51 => 'Placenta',
(int) 52 => 'Testis',
(int) 53 => 'Adipose',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Breast',
(int) 58 => 'Colon',
(int) 59 => 'Heart',
(int) 60 => 'Kidney',
(int) 61 => 'Liver',
(int) 62 => 'Lung',
(int) 63 => 'Muscle',
(int) 64 => 'Ovary',
(int) 65 => 'Placenta',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Breast',
(int) 71 => 'Heart',
(int) 72 => 'Kidney',
(int) 73 => 'Liver',
(int) 74 => 'Lung',
(int) 75 => 'Muscle',
(int) 76 => 'Ovary',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Breast',
(int) 80 => 'Testis',
(int) 81 => 'Brain',
(int) 82 => 'Breast',
(int) 83 => 'Heart',
(int) 84 => 'Testis',
(int) 85 => 'Kidney',
(int) 86 => 'Heart',
(int) 87 => 'Testis',
(int) 88 => 'Brain',
(int) 89 => 'Placenta',
(int) 90 => 'Brain',
(int) 91 => 'Testis',
(int) 92 => 'Brain',
(int) 93 => 'Testis',
(int) 94 => 'Brain',
(int) 95 => 'Placenta',
(int) 96 => 'Testis'
)
),
'CIL_0007JE_0003' => array(
'genes_in_region' => array(
'ENSDARG00000018006' => array(
[maximum depth reached]
),
'ENSDARG00000085644' => array(
[maximum depth reached]
),
'ENSDARG00000089780' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Kidney',
(int) 6 => 'Muscle',
(int) 7 => 'Muscle',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Kidney',
(int) 11 => 'Liver',
(int) 12 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JE_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '4701838',
'seq_end' => '4739175',
'region_length' => '37337',
'region_type' => 'UCNEbase',
'el_id' => 'VRK1'
)
)
$gene_el = array(
'ENSDART00000130899' => array(
'Brain' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.08'
),
'Heart' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.265',
'stddev_FPKM' => '0.03'
),
'Liver' => array(
'average_FPKM' => '0.068',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.047',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000089780'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.08'
),
'Heart' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.265',
'stddev_FPKM' => '0.03'
),
'Liver' => array(
'average_FPKM' => '0.068',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.047',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000130899'
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 |
| VRK1 |
UCNEbase |
7955 |
20:4701838-4739175  |
| Gene | Transcript | Position | Biotype |
|---|
(PAPOLA)