| Source ID |
Type |
Tax ID |
Position |
| ENSMUSG00000014444-ENSMUSG00000006585 |
CGP |
10090 |
8:122481698-122573128  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_00057I_0003 [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSDARG00000003519' => 'adenine phosphoribosyl transferase',
'ENSDARG00000051854' => 'chromatin licensing and DNA replication factor 1',
'ENSDARG00000076870' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000103335' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000167513' => 'chromatin licensing and DNA replication factor 1',
'ENSG00000174177' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSG00000182376' => null,
'ENSG00000224888' => null,
'ENSG00000260121' => null,
'ENSG00000260617' => null,
'ENSG00000265672' => 'microRNA 4722',
'ENSMUSG00000006585' => 'chromatin licensing and DNA replication factor 1',
'ENSMUSG00000014444' => 'piezo-type mechanosensitive ion channel component 1',
'ENSMUSG00000049482' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSMUSG00000065080' => 'predicted gene, 26497'
),
'gene_name_arr' => array(
'ENSDARG00000003519' => 'aprt',
'ENSDARG00000051854' => 'cdt1',
'ENSDARG00000076870' => 'piezo1',
'ENSG00000103335' => 'PIEZO1',
'ENSG00000167513' => 'CDT1',
'ENSG00000174177' => 'CTU2',
'ENSG00000182376' => 'RP5-1142A6.8',
'ENSG00000224888' => 'RP5-1142A6.2',
'ENSG00000260121' => 'RP5-1142A6.9',
'ENSG00000260617' => 'RP5-1142A6.7',
'ENSG00000265672' => 'MIR4722',
'ENSMUSG00000006585' => 'Cdt1',
'ENSMUSG00000014444' => 'Piezo1',
'ENSMUSG00000049482' => 'Ctu2',
'ENSMUSG00000065080' => 'Gm26497'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 10 => 'Brain',
(int) 20 => 'Breast',
(int) 28 => 'Colon',
(int) 35 => 'Heart',
(int) 42 => 'Kidney',
(int) 52 => 'Liver',
(int) 65 => 'Lung',
(int) 73 => 'Muscle',
(int) 84 => 'Ovary',
(int) 90 => 'Placenta',
(int) 95 => '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) 60,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENSDART00000013796' => array(
'start' => '56795987',
'end' => '56803001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-002'
),
'ENSDART00000148514' => array(
'start' => '56793796',
'end' => '56803068',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-001'
),
'ENSDART00000098476' => array(
'start' => '56781782',
'end' => '56793875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-001'
),
'ENSDART00000149915' => array(
'start' => '56781880',
'end' => '56790942',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-002'
),
'ENSDART00000108646' => array(
'start' => '56589025',
'end' => '56778717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'piezo1-201'
),
'ENST00000301015' => array(
'start' => '88715346',
'end' => '88785211',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-001'
),
'ENST00000327397' => array(
'start' => '88715491',
'end' => '88717611',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-201'
),
'ENST00000419505' => array(
'start' => '88715343',
'end' => '88719890',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PIEZO1-003'
),
'ENST00000466823' => array(
'start' => '88717722',
'end' => '88720258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-017'
),
'ENST00000472168' => array(
'start' => '88715816',
'end' => '88716792',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-013'
),
'ENST00000474606' => array(
'start' => '88722982',
'end' => '88726344',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-009'
),
'ENST00000475586' => array(
'start' => '88723947',
'end' => '88726025',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-008'
),
'ENST00000484567' => array(
'start' => '88715343',
'end' => '88718318',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-004'
),
'ENST00000490756' => array(
'start' => '88732464',
'end' => '88732980',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-006'
),
'ENST00000491917' => array(
'start' => '88727074',
'end' => '88727843',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-007'
),
'ENST00000495568' => array(
'start' => '88717023',
'end' => '88720473',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-010'
),
'ENST00000497793' => array(
'start' => '88718972',
'end' => '88720387',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-011'
),
'ENST00000518793' => array(
'start' => '88715343',
'end' => '88716277',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-015'
),
'ENST00000521877' => array(
'start' => '88715449',
'end' => '88716212',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-014'
),
'ENST00000566414' => array(
'start' => '88722523',
'end' => '88723934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-016'
),
'ENST00000301019' => array(
'start' => '88803213',
'end' => '88809258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-001'
),
'ENST00000562747' => array(
'start' => '88804611',
'end' => '88806217',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CDT1-003'
),
'ENST00000569140' => array(
'start' => '88805768',
'end' => '88807342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-002'
),
'ENST00000312060' => array(
'start' => '88706483',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-002'
),
'ENST00000453996' => array(
'start' => '88706463',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-001'
),
'ENST00000562011' => array(
'start' => '88714985',
'end' => '88715383',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-007'
),
'ENST00000564105' => array(
'start' => '88706483',
'end' => '88715320',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'CTU2-003'
),
'ENST00000564584' => array(
'start' => '88713480',
'end' => '88715364',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-008'
),
'ENST00000564921' => array(
'start' => '88706589',
'end' => '88712382',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-009'
),
'ENST00000565071' => array(
'start' => '88706545',
'end' => '88710908',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-010'
),
'ENST00000566637' => array(
'start' => '88709959',
'end' => '88715386',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-005'
),
'ENST00000567316' => array(
'start' => '88714682',
'end' => '88715376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-006'
),
'ENST00000567949' => array(
'start' => '88706522',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-004'
),
'ENST00000333666' => array(
'start' => '88742767',
'end' => '88745748',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-002'
),
'ENST00000567588' => array(
'start' => '88742821',
'end' => '88745464',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-001'
),
'ENST00000440406' => array(
'start' => '88731180',
'end' => '88739188',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-001'
),
'ENST00000567968' => array(
'start' => '88736800',
'end' => '88741425',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-003'
),
'ENST00000564984' => array(
'start' => '88718615',
'end' => '88720459',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.9-001'
),
'ENST00000566114' => array(
'start' => '88741631',
'end' => '88742367',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.7-001'
),
'ENST00000578292' => array(
'start' => '88716278',
'end' => '88716337',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR4722-201'
),
'ENSMUST00000006760' => array(
'start' => '122568015',
'end' => '122573128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Cdt1-201'
),
'ENSMUST00000067252' => array(
'start' => '122481698',
'end' => '122551329',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-201'
),
'ENSMUST00000123671' => array(
'start' => '122481721',
'end' => '122484780',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-008'
),
'ENSMUST00000126553' => array(
'start' => '122483367',
'end' => '122483869',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-007'
),
'ENSMUST00000128383' => array(
'start' => '122481982',
'end' => '122499885',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-001'
),
'ENSMUST00000134304' => array(
'start' => '122482041',
'end' => '122483000',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-006'
),
'ENSMUST00000148497' => array(
'start' => '122485924',
'end' => '122498204',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-002'
),
'ENSMUST00000152596' => array(
'start' => '122484865',
'end' => '122485624',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-004'
),
'ENSMUST00000155803' => array(
'start' => '122482080',
'end' => '122482676',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-005'
),
'ENSMUST00000156333' => array(
'start' => '122481712',
'end' => '122499886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-003'
),
'ENSMUST00000116412' => array(
'start' => '122476143',
'end' => '122483092',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-001'
),
'ENSMUST00000128472' => array(
'start' => '122476693',
'end' => '122478245',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-005'
),
'ENSMUST00000131934' => array(
'start' => '122480922',
'end' => '122481740',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-009'
),
'ENSMUST00000134127' => array(
'start' => '122476220',
'end' => '122479343',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-007'
),
'ENSMUST00000136253' => array(
'start' => '122480957',
'end' => '122481744',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-008'
),
'ENSMUST00000146634' => array(
'start' => '122476213',
'end' => '122478213',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-006'
),
'ENSMUST00000149925' => array(
'start' => '122476243',
'end' => '122478948',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-004'
),
'ENSMUST00000151855' => array(
'start' => '122476209',
'end' => '122484138',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Ctu2-002'
),
'ENSMUST00000154099' => array(
'start' => '122476213',
'end' => '122481741',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-003'
),
'ENSMUST00000083146' => array(
'start' => '122520568',
'end' => '122520674',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26497-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
'ENSDARG00000003519' => array(
[maximum depth reached]
),
'ENSDARG00000051854' => array(
[maximum depth reached]
),
'ENSDARG00000076870' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Muscle',
(int) 1 => 'Brain',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Liver',
(int) 5 => 'Muscle',
(int) 6 => 'Brain',
(int) 7 => 'Heart',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Liver',
(int) 11 => 'Brain',
(int) 12 => 'Heart',
(int) 13 => 'Kidney',
(int) 14 => 'Liver',
(int) 15 => 'Muscle'
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
'ENSG00000103335' => array(
[maximum depth reached]
),
'ENSG00000167513' => array(
[maximum depth reached]
),
'ENSG00000182376' => array(
[maximum depth reached]
),
'ENSG00000260121' => array(
[maximum depth reached]
),
'ENSG00000265672' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Colon',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Brain',
(int) 17 => 'Breast',
(int) 18 => 'Kidney',
(int) 19 => 'Liver',
(int) 20 => 'Lung',
(int) 21 => 'Breast',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Ovary',
(int) 25 => 'Testis',
(int) 26 => 'Muscle',
(int) 27 => 'Adipose',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Breast',
(int) 31 => 'Colon',
(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 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Placenta',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Brain',
(int) 47 => 'Liver',
(int) 48 => 'Muscle',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Muscle',
(int) 52 => 'Testis',
(int) 53 => 'Muscle',
(int) 54 => 'Adipose',
(int) 55 => 'Adrenal',
(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 => 'Testis',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Kidney',
(int) 72 => 'Liver',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adipose',
(int) 77 => 'Adrenal',
(int) 78 => 'Breast',
(int) 79 => 'Colon',
(int) 80 => 'Heart',
(int) 81 => 'Kidney',
(int) 82 => 'Liver',
(int) 83 => 'Lung',
(int) 84 => 'Ovary',
(int) 85 => 'Lung'
)
)
)
$gene_desc_arr = array(
'ENSDARG00000003519' => 'adenine phosphoribosyl transferase',
'ENSDARG00000051854' => 'chromatin licensing and DNA replication factor 1',
'ENSDARG00000076870' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000103335' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000167513' => 'chromatin licensing and DNA replication factor 1',
'ENSG00000174177' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSG00000182376' => null,
'ENSG00000224888' => null,
'ENSG00000260121' => null,
'ENSG00000260617' => null,
'ENSG00000265672' => 'microRNA 4722',
'ENSMUSG00000006585' => 'chromatin licensing and DNA replication factor 1',
'ENSMUSG00000014444' => 'piezo-type mechanosensitive ion channel component 1',
'ENSMUSG00000049482' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSMUSG00000065080' => 'predicted gene, 26497'
)
$gene_name_arr = array(
'ENSDARG00000003519' => 'aprt',
'ENSDARG00000051854' => 'cdt1',
'ENSDARG00000076870' => 'piezo1',
'ENSG00000103335' => 'PIEZO1',
'ENSG00000167513' => 'CDT1',
'ENSG00000174177' => 'CTU2',
'ENSG00000182376' => 'RP5-1142A6.8',
'ENSG00000224888' => 'RP5-1142A6.2',
'ENSG00000260121' => 'RP5-1142A6.9',
'ENSG00000260617' => 'RP5-1142A6.7',
'ENSG00000265672' => 'MIR4722',
'ENSMUSG00000006585' => 'Cdt1',
'ENSMUSG00000014444' => 'Piezo1',
'ENSMUSG00000049482' => 'Ctu2',
'ENSMUSG00000065080' => 'Gm26497'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0001',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '56589025',
'seq_end' => '56793875',
'region_length' => '204850',
'region_type' => 'CGP',
'el_id' => 'ENSDARG00000076870-ENSDARG00000051854'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0002',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '88715343',
'seq_end' => '88809258',
'region_length' => '93915',
'region_type' => 'CGP',
'el_id' => 'ENSG00000103335-ENSG00000167513'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0003',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122481698',
'seq_end' => '122573128',
'region_length' => '91430',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000014444-ENSMUSG00000006585'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 10 => 'Brain',
(int) 20 => 'Breast',
(int) 28 => 'Colon',
(int) 35 => 'Heart',
(int) 42 => 'Kidney',
(int) 52 => 'Liver',
(int) 65 => 'Lung',
(int) 73 => 'Muscle',
(int) 84 => 'Ovary',
(int) 90 => 'Placenta',
(int) 95 => '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) 60
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENSDART00000013796' => array(
'start' => '56795987',
'end' => '56803001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-002'
),
'ENSDART00000148514' => array(
'start' => '56793796',
'end' => '56803068',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-001'
),
'ENSDART00000098476' => array(
'start' => '56781782',
'end' => '56793875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-001'
),
'ENSDART00000149915' => array(
'start' => '56781880',
'end' => '56790942',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-002'
),
'ENSDART00000108646' => array(
'start' => '56589025',
'end' => '56778717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'piezo1-201'
),
'ENST00000301015' => array(
'start' => '88715346',
'end' => '88785211',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-001'
),
'ENST00000327397' => array(
'start' => '88715491',
'end' => '88717611',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-201'
),
'ENST00000419505' => array(
'start' => '88715343',
'end' => '88719890',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PIEZO1-003'
),
'ENST00000466823' => array(
'start' => '88717722',
'end' => '88720258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-017'
),
'ENST00000472168' => array(
'start' => '88715816',
'end' => '88716792',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-013'
),
'ENST00000474606' => array(
'start' => '88722982',
'end' => '88726344',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-009'
),
'ENST00000475586' => array(
'start' => '88723947',
'end' => '88726025',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-008'
),
'ENST00000484567' => array(
'start' => '88715343',
'end' => '88718318',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-004'
),
'ENST00000490756' => array(
'start' => '88732464',
'end' => '88732980',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-006'
),
'ENST00000491917' => array(
'start' => '88727074',
'end' => '88727843',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-007'
),
'ENST00000495568' => array(
'start' => '88717023',
'end' => '88720473',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-010'
),
'ENST00000497793' => array(
'start' => '88718972',
'end' => '88720387',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-011'
),
'ENST00000518793' => array(
'start' => '88715343',
'end' => '88716277',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-015'
),
'ENST00000521877' => array(
'start' => '88715449',
'end' => '88716212',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-014'
),
'ENST00000566414' => array(
'start' => '88722523',
'end' => '88723934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-016'
),
'ENST00000301019' => array(
'start' => '88803213',
'end' => '88809258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-001'
),
'ENST00000562747' => array(
'start' => '88804611',
'end' => '88806217',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CDT1-003'
),
'ENST00000569140' => array(
'start' => '88805768',
'end' => '88807342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-002'
),
'ENST00000312060' => array(
'start' => '88706483',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-002'
),
'ENST00000453996' => array(
'start' => '88706463',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-001'
),
'ENST00000562011' => array(
'start' => '88714985',
'end' => '88715383',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-007'
),
'ENST00000564105' => array(
'start' => '88706483',
'end' => '88715320',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'CTU2-003'
),
'ENST00000564584' => array(
'start' => '88713480',
'end' => '88715364',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-008'
),
'ENST00000564921' => array(
'start' => '88706589',
'end' => '88712382',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-009'
),
'ENST00000565071' => array(
'start' => '88706545',
'end' => '88710908',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-010'
),
'ENST00000566637' => array(
'start' => '88709959',
'end' => '88715386',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-005'
),
'ENST00000567316' => array(
'start' => '88714682',
'end' => '88715376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-006'
),
'ENST00000567949' => array(
'start' => '88706522',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-004'
),
'ENST00000333666' => array(
'start' => '88742767',
'end' => '88745748',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-002'
),
'ENST00000567588' => array(
'start' => '88742821',
'end' => '88745464',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-001'
),
'ENST00000440406' => array(
'start' => '88731180',
'end' => '88739188',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-001'
),
'ENST00000567968' => array(
'start' => '88736800',
'end' => '88741425',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-003'
),
'ENST00000564984' => array(
'start' => '88718615',
'end' => '88720459',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.9-001'
),
'ENST00000566114' => array(
'start' => '88741631',
'end' => '88742367',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.7-001'
),
'ENST00000578292' => array(
'start' => '88716278',
'end' => '88716337',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR4722-201'
),
'ENSMUST00000006760' => array(
'start' => '122568015',
'end' => '122573128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Cdt1-201'
),
'ENSMUST00000067252' => array(
'start' => '122481698',
'end' => '122551329',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-201'
),
'ENSMUST00000123671' => array(
'start' => '122481721',
'end' => '122484780',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-008'
),
'ENSMUST00000126553' => array(
'start' => '122483367',
'end' => '122483869',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-007'
),
'ENSMUST00000128383' => array(
'start' => '122481982',
'end' => '122499885',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-001'
),
'ENSMUST00000134304' => array(
'start' => '122482041',
'end' => '122483000',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-006'
),
'ENSMUST00000148497' => array(
'start' => '122485924',
'end' => '122498204',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-002'
),
'ENSMUST00000152596' => array(
'start' => '122484865',
'end' => '122485624',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-004'
),
'ENSMUST00000155803' => array(
'start' => '122482080',
'end' => '122482676',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-005'
),
'ENSMUST00000156333' => array(
'start' => '122481712',
'end' => '122499886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-003'
),
'ENSMUST00000116412' => array(
'start' => '122476143',
'end' => '122483092',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-001'
),
'ENSMUST00000128472' => array(
'start' => '122476693',
'end' => '122478245',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-005'
),
'ENSMUST00000131934' => array(
'start' => '122480922',
'end' => '122481740',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-009'
),
'ENSMUST00000134127' => array(
'start' => '122476220',
'end' => '122479343',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-007'
),
'ENSMUST00000136253' => array(
'start' => '122480957',
'end' => '122481744',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-008'
),
'ENSMUST00000146634' => array(
'start' => '122476213',
'end' => '122478213',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-006'
),
'ENSMUST00000149925' => array(
'start' => '122476243',
'end' => '122478948',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-004'
),
'ENSMUST00000151855' => array(
'start' => '122476209',
'end' => '122484138',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Ctu2-002'
),
'ENSMUST00000154099' => array(
'start' => '122476213',
'end' => '122481741',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-003'
),
'ENSMUST00000083146' => array(
'start' => '122520568',
'end' => '122520674',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26497-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
'ENSDARG00000003519' => array(
[maximum depth reached]
),
'ENSDARG00000051854' => array(
[maximum depth reached]
),
'ENSDARG00000076870' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Muscle',
(int) 1 => 'Brain',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Liver',
(int) 5 => 'Muscle',
(int) 6 => 'Brain',
(int) 7 => 'Heart',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Liver',
(int) 11 => 'Brain',
(int) 12 => 'Heart',
(int) 13 => 'Kidney',
(int) 14 => 'Liver',
(int) 15 => 'Muscle'
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
'ENSG00000103335' => array(
[maximum depth reached]
),
'ENSG00000167513' => array(
[maximum depth reached]
),
'ENSG00000182376' => array(
[maximum depth reached]
),
'ENSG00000260121' => array(
[maximum depth reached]
),
'ENSG00000265672' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Colon',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Brain',
(int) 17 => 'Breast',
(int) 18 => 'Kidney',
(int) 19 => 'Liver',
(int) 20 => 'Lung',
(int) 21 => 'Breast',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Ovary',
(int) 25 => 'Testis',
(int) 26 => 'Muscle',
(int) 27 => 'Adipose',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Breast',
(int) 31 => 'Colon',
(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 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Placenta',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Brain',
(int) 47 => 'Liver',
(int) 48 => 'Muscle',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Muscle',
(int) 52 => 'Testis',
(int) 53 => 'Muscle',
(int) 54 => 'Adipose',
(int) 55 => 'Adrenal',
(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 => 'Testis',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Kidney',
(int) 72 => 'Liver',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adipose',
(int) 77 => 'Adrenal',
(int) 78 => 'Breast',
(int) 79 => 'Colon',
(int) 80 => 'Heart',
(int) 81 => 'Kidney',
(int) 82 => 'Liver',
(int) 83 => 'Lung',
(int) 84 => 'Ovary',
(int) 85 => 'Lung'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0003',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122481698',
'seq_end' => '122573128',
'region_length' => '91430',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000014444-ENSMUSG00000006585'
)
)
$gene_el = array(
'ENST00000578292' => array(
'Lung' => array(
'average_FPKM' => '0.909',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000265672'
$is_first = false
$tran_el = array(
'Lung' => array(
'average_FPKM' => '0.909',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000578292'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_00057I_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSDARG00000003519' => 'adenine phosphoribosyl transferase',
'ENSDARG00000051854' => 'chromatin licensing and DNA replication factor 1',
'ENSDARG00000076870' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000103335' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000167513' => 'chromatin licensing and DNA replication factor 1',
'ENSG00000174177' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSG00000182376' => null,
'ENSG00000224888' => null,
'ENSG00000260121' => null,
'ENSG00000260617' => null,
'ENSG00000265672' => 'microRNA 4722',
'ENSMUSG00000006585' => 'chromatin licensing and DNA replication factor 1',
'ENSMUSG00000014444' => 'piezo-type mechanosensitive ion channel component 1',
'ENSMUSG00000049482' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSMUSG00000065080' => 'predicted gene, 26497'
),
'gene_name_arr' => array(
'ENSDARG00000003519' => 'aprt',
'ENSDARG00000051854' => 'cdt1',
'ENSDARG00000076870' => 'piezo1',
'ENSG00000103335' => 'PIEZO1',
'ENSG00000167513' => 'CDT1',
'ENSG00000174177' => 'CTU2',
'ENSG00000182376' => 'RP5-1142A6.8',
'ENSG00000224888' => 'RP5-1142A6.2',
'ENSG00000260121' => 'RP5-1142A6.9',
'ENSG00000260617' => 'RP5-1142A6.7',
'ENSG00000265672' => 'MIR4722',
'ENSMUSG00000006585' => 'Cdt1',
'ENSMUSG00000014444' => 'Piezo1',
'ENSMUSG00000049482' => 'Ctu2',
'ENSMUSG00000065080' => 'Gm26497'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 10 => 'Brain',
(int) 20 => 'Breast',
(int) 28 => 'Colon',
(int) 35 => 'Heart',
(int) 42 => 'Kidney',
(int) 52 => 'Liver',
(int) 65 => 'Lung',
(int) 73 => 'Muscle',
(int) 84 => 'Ovary',
(int) 90 => 'Placenta',
(int) 95 => '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) 60,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENSDART00000013796' => array(
'start' => '56795987',
'end' => '56803001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-002'
),
'ENSDART00000148514' => array(
'start' => '56793796',
'end' => '56803068',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-001'
),
'ENSDART00000098476' => array(
'start' => '56781782',
'end' => '56793875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-001'
),
'ENSDART00000149915' => array(
'start' => '56781880',
'end' => '56790942',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-002'
),
'ENSDART00000108646' => array(
'start' => '56589025',
'end' => '56778717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'piezo1-201'
),
'ENST00000301015' => array(
'start' => '88715346',
'end' => '88785211',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-001'
),
'ENST00000327397' => array(
'start' => '88715491',
'end' => '88717611',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-201'
),
'ENST00000419505' => array(
'start' => '88715343',
'end' => '88719890',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PIEZO1-003'
),
'ENST00000466823' => array(
'start' => '88717722',
'end' => '88720258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-017'
),
'ENST00000472168' => array(
'start' => '88715816',
'end' => '88716792',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-013'
),
'ENST00000474606' => array(
'start' => '88722982',
'end' => '88726344',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-009'
),
'ENST00000475586' => array(
'start' => '88723947',
'end' => '88726025',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-008'
),
'ENST00000484567' => array(
'start' => '88715343',
'end' => '88718318',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-004'
),
'ENST00000490756' => array(
'start' => '88732464',
'end' => '88732980',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-006'
),
'ENST00000491917' => array(
'start' => '88727074',
'end' => '88727843',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-007'
),
'ENST00000495568' => array(
'start' => '88717023',
'end' => '88720473',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-010'
),
'ENST00000497793' => array(
'start' => '88718972',
'end' => '88720387',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-011'
),
'ENST00000518793' => array(
'start' => '88715343',
'end' => '88716277',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-015'
),
'ENST00000521877' => array(
'start' => '88715449',
'end' => '88716212',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-014'
),
'ENST00000566414' => array(
'start' => '88722523',
'end' => '88723934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-016'
),
'ENST00000301019' => array(
'start' => '88803213',
'end' => '88809258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-001'
),
'ENST00000562747' => array(
'start' => '88804611',
'end' => '88806217',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CDT1-003'
),
'ENST00000569140' => array(
'start' => '88805768',
'end' => '88807342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-002'
),
'ENST00000312060' => array(
'start' => '88706483',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-002'
),
'ENST00000453996' => array(
'start' => '88706463',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-001'
),
'ENST00000562011' => array(
'start' => '88714985',
'end' => '88715383',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-007'
),
'ENST00000564105' => array(
'start' => '88706483',
'end' => '88715320',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'CTU2-003'
),
'ENST00000564584' => array(
'start' => '88713480',
'end' => '88715364',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-008'
),
'ENST00000564921' => array(
'start' => '88706589',
'end' => '88712382',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-009'
),
'ENST00000565071' => array(
'start' => '88706545',
'end' => '88710908',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-010'
),
'ENST00000566637' => array(
'start' => '88709959',
'end' => '88715386',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-005'
),
'ENST00000567316' => array(
'start' => '88714682',
'end' => '88715376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-006'
),
'ENST00000567949' => array(
'start' => '88706522',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-004'
),
'ENST00000333666' => array(
'start' => '88742767',
'end' => '88745748',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-002'
),
'ENST00000567588' => array(
'start' => '88742821',
'end' => '88745464',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-001'
),
'ENST00000440406' => array(
'start' => '88731180',
'end' => '88739188',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-001'
),
'ENST00000567968' => array(
'start' => '88736800',
'end' => '88741425',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-003'
),
'ENST00000564984' => array(
'start' => '88718615',
'end' => '88720459',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.9-001'
),
'ENST00000566114' => array(
'start' => '88741631',
'end' => '88742367',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.7-001'
),
'ENST00000578292' => array(
'start' => '88716278',
'end' => '88716337',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR4722-201'
),
'ENSMUST00000006760' => array(
'start' => '122568015',
'end' => '122573128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Cdt1-201'
),
'ENSMUST00000067252' => array(
'start' => '122481698',
'end' => '122551329',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-201'
),
'ENSMUST00000123671' => array(
'start' => '122481721',
'end' => '122484780',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-008'
),
'ENSMUST00000126553' => array(
'start' => '122483367',
'end' => '122483869',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-007'
),
'ENSMUST00000128383' => array(
'start' => '122481982',
'end' => '122499885',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-001'
),
'ENSMUST00000134304' => array(
'start' => '122482041',
'end' => '122483000',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-006'
),
'ENSMUST00000148497' => array(
'start' => '122485924',
'end' => '122498204',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-002'
),
'ENSMUST00000152596' => array(
'start' => '122484865',
'end' => '122485624',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-004'
),
'ENSMUST00000155803' => array(
'start' => '122482080',
'end' => '122482676',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-005'
),
'ENSMUST00000156333' => array(
'start' => '122481712',
'end' => '122499886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-003'
),
'ENSMUST00000116412' => array(
'start' => '122476143',
'end' => '122483092',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-001'
),
'ENSMUST00000128472' => array(
'start' => '122476693',
'end' => '122478245',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-005'
),
'ENSMUST00000131934' => array(
'start' => '122480922',
'end' => '122481740',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-009'
),
'ENSMUST00000134127' => array(
'start' => '122476220',
'end' => '122479343',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-007'
),
'ENSMUST00000136253' => array(
'start' => '122480957',
'end' => '122481744',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-008'
),
'ENSMUST00000146634' => array(
'start' => '122476213',
'end' => '122478213',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-006'
),
'ENSMUST00000149925' => array(
'start' => '122476243',
'end' => '122478948',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-004'
),
'ENSMUST00000151855' => array(
'start' => '122476209',
'end' => '122484138',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Ctu2-002'
),
'ENSMUST00000154099' => array(
'start' => '122476213',
'end' => '122481741',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-003'
),
'ENSMUST00000083146' => array(
'start' => '122520568',
'end' => '122520674',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26497-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
'ENSDARG00000003519' => array(
[maximum depth reached]
),
'ENSDARG00000051854' => array(
[maximum depth reached]
),
'ENSDARG00000076870' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Muscle',
(int) 1 => 'Brain',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Liver',
(int) 5 => 'Muscle',
(int) 6 => 'Brain',
(int) 7 => 'Heart',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Liver',
(int) 11 => 'Brain',
(int) 12 => 'Heart',
(int) 13 => 'Kidney',
(int) 14 => 'Liver',
(int) 15 => 'Muscle'
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
'ENSG00000103335' => array(
[maximum depth reached]
),
'ENSG00000167513' => array(
[maximum depth reached]
),
'ENSG00000182376' => array(
[maximum depth reached]
),
'ENSG00000260121' => array(
[maximum depth reached]
),
'ENSG00000265672' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Colon',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Brain',
(int) 17 => 'Breast',
(int) 18 => 'Kidney',
(int) 19 => 'Liver',
(int) 20 => 'Lung',
(int) 21 => 'Breast',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Ovary',
(int) 25 => 'Testis',
(int) 26 => 'Muscle',
(int) 27 => 'Adipose',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Breast',
(int) 31 => 'Colon',
(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 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Placenta',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Brain',
(int) 47 => 'Liver',
(int) 48 => 'Muscle',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Muscle',
(int) 52 => 'Testis',
(int) 53 => 'Muscle',
(int) 54 => 'Adipose',
(int) 55 => 'Adrenal',
(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 => 'Testis',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Kidney',
(int) 72 => 'Liver',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adipose',
(int) 77 => 'Adrenal',
(int) 78 => 'Breast',
(int) 79 => 'Colon',
(int) 80 => 'Heart',
(int) 81 => 'Kidney',
(int) 82 => 'Liver',
(int) 83 => 'Lung',
(int) 84 => 'Ovary',
(int) 85 => 'Lung'
)
)
)
$gene_desc_arr = array(
'ENSDARG00000003519' => 'adenine phosphoribosyl transferase',
'ENSDARG00000051854' => 'chromatin licensing and DNA replication factor 1',
'ENSDARG00000076870' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000103335' => 'piezo-type mechanosensitive ion channel component 1',
'ENSG00000167513' => 'chromatin licensing and DNA replication factor 1',
'ENSG00000174177' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSG00000182376' => null,
'ENSG00000224888' => null,
'ENSG00000260121' => null,
'ENSG00000260617' => null,
'ENSG00000265672' => 'microRNA 4722',
'ENSMUSG00000006585' => 'chromatin licensing and DNA replication factor 1',
'ENSMUSG00000014444' => 'piezo-type mechanosensitive ion channel component 1',
'ENSMUSG00000049482' => 'cytosolic thiouridylase subunit 2 homolog (S. pombe)',
'ENSMUSG00000065080' => 'predicted gene, 26497'
)
$gene_name_arr = array(
'ENSDARG00000003519' => 'aprt',
'ENSDARG00000051854' => 'cdt1',
'ENSDARG00000076870' => 'piezo1',
'ENSG00000103335' => 'PIEZO1',
'ENSG00000167513' => 'CDT1',
'ENSG00000174177' => 'CTU2',
'ENSG00000182376' => 'RP5-1142A6.8',
'ENSG00000224888' => 'RP5-1142A6.2',
'ENSG00000260121' => 'RP5-1142A6.9',
'ENSG00000260617' => 'RP5-1142A6.7',
'ENSG00000265672' => 'MIR4722',
'ENSMUSG00000006585' => 'Cdt1',
'ENSMUSG00000014444' => 'Piezo1',
'ENSMUSG00000049482' => 'Ctu2',
'ENSMUSG00000065080' => 'Gm26497'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0001',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '56589025',
'seq_end' => '56793875',
'region_length' => '204850',
'region_type' => 'CGP',
'el_id' => 'ENSDARG00000076870-ENSDARG00000051854'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0002',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '88715343',
'seq_end' => '88809258',
'region_length' => '93915',
'region_type' => 'CGP',
'el_id' => 'ENSG00000103335-ENSG00000167513'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0003',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122481698',
'seq_end' => '122573128',
'region_length' => '91430',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000014444-ENSMUSG00000006585'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 4 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 10 => 'Brain',
(int) 20 => 'Breast',
(int) 28 => 'Colon',
(int) 35 => 'Heart',
(int) 42 => 'Kidney',
(int) 52 => 'Liver',
(int) 65 => 'Lung',
(int) 73 => 'Muscle',
(int) 84 => 'Ovary',
(int) 90 => 'Placenta',
(int) 95 => '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) 60
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENSDART00000013796' => array(
'start' => '56795987',
'end' => '56803001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-002'
),
'ENSDART00000148514' => array(
'start' => '56793796',
'end' => '56803068',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'aprt-001'
),
'ENSDART00000098476' => array(
'start' => '56781782',
'end' => '56793875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-001'
),
'ENSDART00000149915' => array(
'start' => '56781880',
'end' => '56790942',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'cdt1-002'
),
'ENSDART00000108646' => array(
'start' => '56589025',
'end' => '56778717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'piezo1-201'
),
'ENST00000301015' => array(
'start' => '88715346',
'end' => '88785211',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-001'
),
'ENST00000327397' => array(
'start' => '88715491',
'end' => '88717611',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-201'
),
'ENST00000419505' => array(
'start' => '88715343',
'end' => '88719890',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PIEZO1-003'
),
'ENST00000466823' => array(
'start' => '88717722',
'end' => '88720258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-017'
),
'ENST00000472168' => array(
'start' => '88715816',
'end' => '88716792',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-013'
),
'ENST00000474606' => array(
'start' => '88722982',
'end' => '88726344',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-009'
),
'ENST00000475586' => array(
'start' => '88723947',
'end' => '88726025',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-008'
),
'ENST00000484567' => array(
'start' => '88715343',
'end' => '88718318',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-004'
),
'ENST00000490756' => array(
'start' => '88732464',
'end' => '88732980',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-006'
),
'ENST00000491917' => array(
'start' => '88727074',
'end' => '88727843',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-007'
),
'ENST00000495568' => array(
'start' => '88717023',
'end' => '88720473',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-010'
),
'ENST00000497793' => array(
'start' => '88718972',
'end' => '88720387',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-011'
),
'ENST00000518793' => array(
'start' => '88715343',
'end' => '88716277',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PIEZO1-015'
),
'ENST00000521877' => array(
'start' => '88715449',
'end' => '88716212',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-014'
),
'ENST00000566414' => array(
'start' => '88722523',
'end' => '88723934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PIEZO1-016'
),
'ENST00000301019' => array(
'start' => '88803213',
'end' => '88809258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-001'
),
'ENST00000562747' => array(
'start' => '88804611',
'end' => '88806217',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CDT1-003'
),
'ENST00000569140' => array(
'start' => '88805768',
'end' => '88807342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CDT1-002'
),
'ENST00000312060' => array(
'start' => '88706483',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-002'
),
'ENST00000453996' => array(
'start' => '88706463',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-001'
),
'ENST00000562011' => array(
'start' => '88714985',
'end' => '88715383',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-007'
),
'ENST00000564105' => array(
'start' => '88706483',
'end' => '88715320',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'CTU2-003'
),
'ENST00000564584' => array(
'start' => '88713480',
'end' => '88715364',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-008'
),
'ENST00000564921' => array(
'start' => '88706589',
'end' => '88712382',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-009'
),
'ENST00000565071' => array(
'start' => '88706545',
'end' => '88710908',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-010'
),
'ENST00000566637' => array(
'start' => '88709959',
'end' => '88715386',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'CTU2-005'
),
'ENST00000567316' => array(
'start' => '88714682',
'end' => '88715376',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-006'
),
'ENST00000567949' => array(
'start' => '88706522',
'end' => '88715386',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'CTU2-004'
),
'ENST00000333666' => array(
'start' => '88742767',
'end' => '88745748',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-002'
),
'ENST00000567588' => array(
'start' => '88742821',
'end' => '88745464',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.8-001'
),
'ENST00000440406' => array(
'start' => '88731180',
'end' => '88739188',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-001'
),
'ENST00000567968' => array(
'start' => '88736800',
'end' => '88741425',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.2-003'
),
'ENST00000564984' => array(
'start' => '88718615',
'end' => '88720459',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.9-001'
),
'ENST00000566114' => array(
'start' => '88741631',
'end' => '88742367',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-1142A6.7-001'
),
'ENST00000578292' => array(
'start' => '88716278',
'end' => '88716337',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR4722-201'
),
'ENSMUST00000006760' => array(
'start' => '122568015',
'end' => '122573128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Cdt1-201'
),
'ENSMUST00000067252' => array(
'start' => '122481698',
'end' => '122551329',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-201'
),
'ENSMUST00000123671' => array(
'start' => '122481721',
'end' => '122484780',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-008'
),
'ENSMUST00000126553' => array(
'start' => '122483367',
'end' => '122483869',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-007'
),
'ENSMUST00000128383' => array(
'start' => '122481982',
'end' => '122499885',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-001'
),
'ENSMUST00000134304' => array(
'start' => '122482041',
'end' => '122483000',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-006'
),
'ENSMUST00000148497' => array(
'start' => '122485924',
'end' => '122498204',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Piezo1-002'
),
'ENSMUST00000152596' => array(
'start' => '122484865',
'end' => '122485624',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-004'
),
'ENSMUST00000155803' => array(
'start' => '122482080',
'end' => '122482676',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Piezo1-005'
),
'ENSMUST00000156333' => array(
'start' => '122481712',
'end' => '122499886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Piezo1-003'
),
'ENSMUST00000116412' => array(
'start' => '122476143',
'end' => '122483092',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-001'
),
'ENSMUST00000128472' => array(
'start' => '122476693',
'end' => '122478245',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-005'
),
'ENSMUST00000131934' => array(
'start' => '122480922',
'end' => '122481740',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-009'
),
'ENSMUST00000134127' => array(
'start' => '122476220',
'end' => '122479343',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-007'
),
'ENSMUST00000136253' => array(
'start' => '122480957',
'end' => '122481744',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-008'
),
'ENSMUST00000146634' => array(
'start' => '122476213',
'end' => '122478213',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ctu2-006'
),
'ENSMUST00000149925' => array(
'start' => '122476243',
'end' => '122478948',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-004'
),
'ENSMUST00000151855' => array(
'start' => '122476209',
'end' => '122484138',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Ctu2-002'
),
'ENSMUST00000154099' => array(
'start' => '122476213',
'end' => '122481741',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ctu2-003'
),
'ENSMUST00000083146' => array(
'start' => '122520568',
'end' => '122520674',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26497-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_00057I_0001' => array(
'genes_in_region' => array(
'ENSDARG00000003519' => array(
[maximum depth reached]
),
'ENSDARG00000051854' => array(
[maximum depth reached]
),
'ENSDARG00000076870' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Muscle',
(int) 1 => 'Brain',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Liver',
(int) 5 => 'Muscle',
(int) 6 => 'Brain',
(int) 7 => 'Heart',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Liver',
(int) 11 => 'Brain',
(int) 12 => 'Heart',
(int) 13 => 'Kidney',
(int) 14 => 'Liver',
(int) 15 => 'Muscle'
)
),
'CIL_00057I_0002' => array(
'genes_in_region' => array(
'ENSG00000103335' => array(
[maximum depth reached]
),
'ENSG00000167513' => array(
[maximum depth reached]
),
'ENSG00000182376' => array(
[maximum depth reached]
),
'ENSG00000260121' => array(
[maximum depth reached]
),
'ENSG00000265672' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Colon',
(int) 14 => 'Kidney',
(int) 15 => 'Liver',
(int) 16 => 'Brain',
(int) 17 => 'Breast',
(int) 18 => 'Kidney',
(int) 19 => 'Liver',
(int) 20 => 'Lung',
(int) 21 => 'Breast',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Ovary',
(int) 25 => 'Testis',
(int) 26 => 'Muscle',
(int) 27 => 'Adipose',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Breast',
(int) 31 => 'Colon',
(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 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Placenta',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Brain',
(int) 47 => 'Liver',
(int) 48 => 'Muscle',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Muscle',
(int) 52 => 'Testis',
(int) 53 => 'Muscle',
(int) 54 => 'Adipose',
(int) 55 => 'Adrenal',
(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 => 'Testis',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Kidney',
(int) 72 => 'Liver',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adipose',
(int) 77 => 'Adrenal',
(int) 78 => 'Breast',
(int) 79 => 'Colon',
(int) 80 => 'Heart',
(int) 81 => 'Kidney',
(int) 82 => 'Liver',
(int) 83 => 'Lung',
(int) 84 => 'Ovary',
(int) 85 => 'Lung'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_00057I_0003',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122481698',
'seq_end' => '122573128',
'region_length' => '91430',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000014444-ENSMUSG00000006585'
)
)
$gene_el = array(
'ENST00000578292' => array(
'Lung' => array(
'average_FPKM' => '0.909',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000265672'
$is_first = false
$tran_el = array(
'Lung' => array(
'average_FPKM' => '0.909',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000578292'
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
(aprt)