Notice (8): Undefined index: CIL_0007M6_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_0007M6_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000185630' => 'pre-B-cell leukemia homeobox 1',
'ENSG00000199849' => 'RNA, U5F small nuclear 6, pseudogene',
'ENSG00000207082' => 'RNA, U6 small nuclear 171, pseudogene',
'ENSG00000213070' => 'high mobility group box 3 pseudogene 6',
'ENSG00000225719' => 'NMNAT1 pseudogene 2',
'ENSG00000269887' => null,
'ENSG00000274155' => null,
'ENSG00000276359' => 'Metazoan signal recognition particle RNA',
'ENSG00000277116' => null,
'ENSMUSG00000052534' => 'pre B cell leukemia homeobox 1',
'ENSMUSG00000098407' => 'microRNA 6348',
'ENSMUSG00000099251' => 'predicted gene, 27264',
'ENSDARG00000086991' => null,
'ENSDARG00000089550' => 'pre-B-cell leukemia transcription factor 1b'
),
'gene_name_arr' => array(
'ENSG00000185630' => 'PBX1',
'ENSG00000199849' => 'RNU5F-6P',
'ENSG00000207082' => 'RNU6-171P',
'ENSG00000213070' => 'HMGB3P6',
'ENSG00000225719' => 'NMNAT1P2',
'ENSG00000269887' => 'RP11-477H21.2',
'ENSG00000274155' => 'AL391001.1',
'ENSG00000276359' => 'Metazoa_SRP',
'ENSG00000277116' => 'AL391001.2',
'ENSMUSG00000052534' => 'Pbx1',
'ENSMUSG00000098407' => 'Mir6348',
'ENSMUSG00000099251' => 'Gm27264',
'ENSDARG00000086991' => 'pbx1a',
'ENSDARG00000089550' => 'pbx1b'
),
'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]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 13 => 'Bladder',
(int) 18 => 'Brain',
(int) 26 => 'Breast',
(int) 34 => 'Colon',
(int) 41 => 'Heart',
(int) 50 => 'Kidney',
(int) 62 => 'Liver',
(int) 70 => 'Lung',
(int) 77 => 'Muscle',
(int) 88 => 'Ovary',
(int) 96 => 'Placenta',
(int) 104 => '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) 44,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000340699' => array(
'start' => '164559407',
'end' => '164792738',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-007'
),
'ENST00000367897' => array(
'start' => '164559823',
'end' => '164846955',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-002'
),
'ENST00000420696' => array(
'start' => '164559635',
'end' => '164851831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-001'
),
'ENST00000465089' => array(
'start' => '164812728',
'end' => '164850357',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-005'
),
'ENST00000467023' => array(
'start' => '164555584',
'end' => '164564015',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-008'
),
'ENST00000468104' => array(
'start' => '164605193',
'end' => '164847071',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-004'
),
'ENST00000474046' => array(
'start' => '164626036',
'end' => '164682483',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-003'
),
'ENST00000482110' => array(
'start' => '164630981',
'end' => '164799889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-009'
),
'ENST00000485769' => array(
'start' => '164559200',
'end' => '164560357',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-006'
),
'ENST00000496120' => array(
'start' => '164590350',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-016'
),
'ENST00000498497' => array(
'start' => '164559823',
'end' => '164684965',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-010'
),
'ENST00000540236' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-201'
),
'ENST00000558796' => array(
'start' => '164651896',
'end' => '164899296',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-011'
),
'ENST00000558837' => array(
'start' => '164772912',
'end' => '164807571',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-019'
),
'ENST00000559240' => array(
'start' => '164559823',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-012'
),
'ENST00000559560' => array(
'start' => '164787643',
'end' => '164799796',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-018'
),
'ENST00000559578' => array(
'start' => '164562805',
'end' => '164799883',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-013'
),
'ENST00000560469' => array(
'start' => '164576784',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-015'
),
'ENST00000560641' => array(
'start' => '164626006',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-017'
),
'ENST00000605467' => array(
'start' => '164560013',
'end' => '164560450',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-014'
),
'ENST00000612123' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-202'
),
'ENST00000362979' => array(
'start' => '164351273',
'end' => '164351388',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU5F-6P-201'
),
'ENST00000384354' => array(
'start' => '164639565',
'end' => '164639671',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-171P-201'
),
'ENST00000444896' => array(
'start' => '164356767',
'end' => '164357364',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HMGB3P6-001'
),
'ENST00000435192' => array(
'start' => '164343005',
'end' => '164343864',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NMNAT1P2-001'
),
'ENST00000602747' => array(
'start' => '164680085',
'end' => '164680799',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-477H21.2-001'
),
'ENST00000611960' => array(
'start' => '164589509',
'end' => '164589579',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.1-201'
),
'ENST00000619303' => array(
'start' => '164703026',
'end' => '164703309',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Metazoa_SRP.1-367'
),
'ENST00000613055' => array(
'start' => '164675324',
'end' => '164675424',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.2-201'
),
'ENSMUST00000064438' => array(
'start' => '168158732',
'end' => '168431504',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-005'
),
'ENSMUST00000072863' => array(
'start' => '168183573',
'end' => '168432169',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-201'
),
'ENSMUST00000097471' => array(
'start' => '168158370',
'end' => '168164662',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Pbx1-009'
),
'ENSMUST00000176309' => array(
'start' => '168120969',
'end' => '168405601',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-003'
),
'ENSMUST00000176482' => array(
'start' => '168208343',
'end' => '168431660',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-006'
),
'ENSMUST00000176540' => array(
'start' => '168153542',
'end' => '168431897',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-002'
),
'ENSMUST00000176790' => array(
'start' => '168158330',
'end' => '168431750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-004'
),
'ENSMUST00000176791' => array(
'start' => '168424442',
'end' => '168432169',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-007'
),
'ENSMUST00000188912' => array(
'start' => '168119364',
'end' => '168432270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-001'
),
'ENSMUST00000183804' => array(
'start' => '168490643',
'end' => '168490762',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir6348-201'
),
'ENSMUST00000184277' => array(
'start' => '168405551',
'end' => '168405621',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27264-201'
),
'ENSDART00000123426' => array(
'start' => '19615629',
'end' => '19619142',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'pbx1a-002'
),
'ENSDART00000122028' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-201'
),
'ENSDART00000125538' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-202'
),
'ENSDART00000129503' => array(
'start' => '2064454',
'end' => '2193121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-203'
)
),
'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_0007M6_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007M6_0001' => array(
'genes_in_region' => array(
'ENSG00000207082' => array(
[maximum depth reached]
),
'ENSG00000213070' => array(
[maximum depth reached]
),
'ENSG00000269887' => array(
[maximum depth reached]
),
'ENSG00000274155' => array(
[maximum depth reached]
),
'ENSG00000276359' => array(
[maximum depth reached]
),
'ENSG00000277116' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Bladder',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Bladder',
(int) 9 => 'Breast',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Ovary',
(int) 15 => 'Kidney',
(int) 16 => 'Heart',
(int) 17 => 'Muscle',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Brain',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Muscle',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Lung',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adipose',
(int) 56 => 'Adrenal',
(int) 57 => 'Bladder',
(int) 58 => 'Brain',
(int) 59 => 'Breast',
(int) 60 => 'Colon',
(int) 61 => 'Heart',
(int) 62 => 'Kidney',
(int) 63 => 'Liver',
(int) 64 => 'Lung',
(int) 65 => 'Muscle',
(int) 66 => 'Ovary',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Kidney',
(int) 70 => 'Kidney',
(int) 71 => 'Muscle',
(int) 72 => 'Brain',
(int) 73 => 'Heart',
(int) 74 => 'Muscle'
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
'ENSDARG00000086991' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Muscle'
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
'ENSDARG00000089550' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Liver',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Kidney'
)
)
)
$gene_desc_arr = array(
'ENSG00000185630' => 'pre-B-cell leukemia homeobox 1',
'ENSG00000199849' => 'RNA, U5F small nuclear 6, pseudogene',
'ENSG00000207082' => 'RNA, U6 small nuclear 171, pseudogene',
'ENSG00000213070' => 'high mobility group box 3 pseudogene 6',
'ENSG00000225719' => 'NMNAT1 pseudogene 2',
'ENSG00000269887' => null,
'ENSG00000274155' => null,
'ENSG00000276359' => 'Metazoan signal recognition particle RNA',
'ENSG00000277116' => null,
'ENSMUSG00000052534' => 'pre B cell leukemia homeobox 1',
'ENSMUSG00000098407' => 'microRNA 6348',
'ENSMUSG00000099251' => 'predicted gene, 27264',
'ENSDARG00000086991' => null,
'ENSDARG00000089550' => 'pre-B-cell leukemia transcription factor 1b'
)
$gene_name_arr = array(
'ENSG00000185630' => 'PBX1',
'ENSG00000199849' => 'RNU5F-6P',
'ENSG00000207082' => 'RNU6-171P',
'ENSG00000213070' => 'HMGB3P6',
'ENSG00000225719' => 'NMNAT1P2',
'ENSG00000269887' => 'RP11-477H21.2',
'ENSG00000274155' => 'AL391001.1',
'ENSG00000276359' => 'Metazoa_SRP',
'ENSG00000277116' => 'AL391001.2',
'ENSMUSG00000052534' => 'Pbx1',
'ENSMUSG00000098407' => 'Mir6348',
'ENSMUSG00000099251' => 'Gm27264',
'ENSDARG00000086991' => 'pbx1a',
'ENSDARG00000089550' => 'pbx1b'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '164054328',
'seq_end' => '164712505',
'region_length' => '658177',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0002',
'tax_id' => '10090',
'chromosome' => '1',
'seq_start' => '168288295',
'seq_end' => '168909082',
'region_length' => '620787',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0003',
'tax_id' => '7955',
'chromosome' => '2',
'seq_start' => '19567218',
'seq_end' => '19674228',
'region_length' => '107010',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '1184177',
'seq_end' => '1184377',
'region_length' => '200',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0005',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '2040548',
'seq_end' => '2134418',
'region_length' => '93870',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 13 => 'Bladder',
(int) 18 => 'Brain',
(int) 26 => 'Breast',
(int) 34 => 'Colon',
(int) 41 => 'Heart',
(int) 50 => 'Kidney',
(int) 62 => 'Liver',
(int) 70 => 'Lung',
(int) 77 => 'Muscle',
(int) 88 => 'Ovary',
(int) 96 => 'Placenta',
(int) 104 => '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) 44
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000340699' => array(
'start' => '164559407',
'end' => '164792738',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-007'
),
'ENST00000367897' => array(
'start' => '164559823',
'end' => '164846955',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-002'
),
'ENST00000420696' => array(
'start' => '164559635',
'end' => '164851831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-001'
),
'ENST00000465089' => array(
'start' => '164812728',
'end' => '164850357',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-005'
),
'ENST00000467023' => array(
'start' => '164555584',
'end' => '164564015',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-008'
),
'ENST00000468104' => array(
'start' => '164605193',
'end' => '164847071',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-004'
),
'ENST00000474046' => array(
'start' => '164626036',
'end' => '164682483',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-003'
),
'ENST00000482110' => array(
'start' => '164630981',
'end' => '164799889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-009'
),
'ENST00000485769' => array(
'start' => '164559200',
'end' => '164560357',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-006'
),
'ENST00000496120' => array(
'start' => '164590350',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-016'
),
'ENST00000498497' => array(
'start' => '164559823',
'end' => '164684965',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-010'
),
'ENST00000540236' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-201'
),
'ENST00000558796' => array(
'start' => '164651896',
'end' => '164899296',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-011'
),
'ENST00000558837' => array(
'start' => '164772912',
'end' => '164807571',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-019'
),
'ENST00000559240' => array(
'start' => '164559823',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-012'
),
'ENST00000559560' => array(
'start' => '164787643',
'end' => '164799796',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-018'
),
'ENST00000559578' => array(
'start' => '164562805',
'end' => '164799883',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-013'
),
'ENST00000560469' => array(
'start' => '164576784',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-015'
),
'ENST00000560641' => array(
'start' => '164626006',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-017'
),
'ENST00000605467' => array(
'start' => '164560013',
'end' => '164560450',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-014'
),
'ENST00000612123' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-202'
),
'ENST00000362979' => array(
'start' => '164351273',
'end' => '164351388',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU5F-6P-201'
),
'ENST00000384354' => array(
'start' => '164639565',
'end' => '164639671',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-171P-201'
),
'ENST00000444896' => array(
'start' => '164356767',
'end' => '164357364',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HMGB3P6-001'
),
'ENST00000435192' => array(
'start' => '164343005',
'end' => '164343864',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NMNAT1P2-001'
),
'ENST00000602747' => array(
'start' => '164680085',
'end' => '164680799',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-477H21.2-001'
),
'ENST00000611960' => array(
'start' => '164589509',
'end' => '164589579',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.1-201'
),
'ENST00000619303' => array(
'start' => '164703026',
'end' => '164703309',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Metazoa_SRP.1-367'
),
'ENST00000613055' => array(
'start' => '164675324',
'end' => '164675424',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.2-201'
),
'ENSMUST00000064438' => array(
'start' => '168158732',
'end' => '168431504',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-005'
),
'ENSMUST00000072863' => array(
'start' => '168183573',
'end' => '168432169',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-201'
),
'ENSMUST00000097471' => array(
'start' => '168158370',
'end' => '168164662',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Pbx1-009'
),
'ENSMUST00000176309' => array(
'start' => '168120969',
'end' => '168405601',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-003'
),
'ENSMUST00000176482' => array(
'start' => '168208343',
'end' => '168431660',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-006'
),
'ENSMUST00000176540' => array(
'start' => '168153542',
'end' => '168431897',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-002'
),
'ENSMUST00000176790' => array(
'start' => '168158330',
'end' => '168431750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-004'
),
'ENSMUST00000176791' => array(
'start' => '168424442',
'end' => '168432169',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-007'
),
'ENSMUST00000188912' => array(
'start' => '168119364',
'end' => '168432270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-001'
),
'ENSMUST00000183804' => array(
'start' => '168490643',
'end' => '168490762',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir6348-201'
),
'ENSMUST00000184277' => array(
'start' => '168405551',
'end' => '168405621',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27264-201'
),
'ENSDART00000123426' => array(
'start' => '19615629',
'end' => '19619142',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'pbx1a-002'
),
'ENSDART00000122028' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-201'
),
'ENSDART00000125538' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-202'
),
'ENSDART00000129503' => array(
'start' => '2064454',
'end' => '2193121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-203'
)
)
$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_0007M6_0001' => array(
'genes_in_region' => array(
'ENSG00000207082' => array(
[maximum depth reached]
),
'ENSG00000213070' => array(
[maximum depth reached]
),
'ENSG00000269887' => array(
[maximum depth reached]
),
'ENSG00000274155' => array(
[maximum depth reached]
),
'ENSG00000276359' => array(
[maximum depth reached]
),
'ENSG00000277116' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Bladder',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Bladder',
(int) 9 => 'Breast',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Ovary',
(int) 15 => 'Kidney',
(int) 16 => 'Heart',
(int) 17 => 'Muscle',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Brain',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Muscle',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Lung',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adipose',
(int) 56 => 'Adrenal',
(int) 57 => 'Bladder',
(int) 58 => 'Brain',
(int) 59 => 'Breast',
(int) 60 => 'Colon',
(int) 61 => 'Heart',
(int) 62 => 'Kidney',
(int) 63 => 'Liver',
(int) 64 => 'Lung',
(int) 65 => 'Muscle',
(int) 66 => 'Ovary',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Kidney',
(int) 70 => 'Kidney',
(int) 71 => 'Muscle',
(int) 72 => 'Brain',
(int) 73 => 'Heart',
(int) 74 => 'Muscle'
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
'ENSDARG00000086991' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Muscle'
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
'ENSDARG00000089550' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Liver',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Kidney'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '1184177',
'seq_end' => '1184377',
'region_length' => '200',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
)
$gene_el = array(
'ENSDART00000123426' => array(
'Brain' => array(
'average_FPKM' => '1.804',
'stddev_FPKM' => '1.71'
),
'Heart' => array(
'average_FPKM' => '0.260',
'stddev_FPKM' => '0.29'
),
'Kidney' => array(
'average_FPKM' => '0.067',
'stddev_FPKM' => '0.03'
),
'Muscle' => array(
'average_FPKM' => '0.527',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000086991'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '1.804',
'stddev_FPKM' => '1.71'
),
'Heart' => array(
'average_FPKM' => '0.260',
'stddev_FPKM' => '0.29'
),
'Kidney' => array(
'average_FPKM' => '0.067',
'stddev_FPKM' => '0.03'
),
'Muscle' => array(
'average_FPKM' => '0.527',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000123426'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007M6_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000185630' => 'pre-B-cell leukemia homeobox 1',
'ENSG00000199849' => 'RNA, U5F small nuclear 6, pseudogene',
'ENSG00000207082' => 'RNA, U6 small nuclear 171, pseudogene',
'ENSG00000213070' => 'high mobility group box 3 pseudogene 6',
'ENSG00000225719' => 'NMNAT1 pseudogene 2',
'ENSG00000269887' => null,
'ENSG00000274155' => null,
'ENSG00000276359' => 'Metazoan signal recognition particle RNA',
'ENSG00000277116' => null,
'ENSMUSG00000052534' => 'pre B cell leukemia homeobox 1',
'ENSMUSG00000098407' => 'microRNA 6348',
'ENSMUSG00000099251' => 'predicted gene, 27264',
'ENSDARG00000086991' => null,
'ENSDARG00000089550' => 'pre-B-cell leukemia transcription factor 1b'
),
'gene_name_arr' => array(
'ENSG00000185630' => 'PBX1',
'ENSG00000199849' => 'RNU5F-6P',
'ENSG00000207082' => 'RNU6-171P',
'ENSG00000213070' => 'HMGB3P6',
'ENSG00000225719' => 'NMNAT1P2',
'ENSG00000269887' => 'RP11-477H21.2',
'ENSG00000274155' => 'AL391001.1',
'ENSG00000276359' => 'Metazoa_SRP',
'ENSG00000277116' => 'AL391001.2',
'ENSMUSG00000052534' => 'Pbx1',
'ENSMUSG00000098407' => 'Mir6348',
'ENSMUSG00000099251' => 'Gm27264',
'ENSDARG00000086991' => 'pbx1a',
'ENSDARG00000089550' => 'pbx1b'
),
'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]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 13 => 'Bladder',
(int) 18 => 'Brain',
(int) 26 => 'Breast',
(int) 34 => 'Colon',
(int) 41 => 'Heart',
(int) 50 => 'Kidney',
(int) 62 => 'Liver',
(int) 70 => 'Lung',
(int) 77 => 'Muscle',
(int) 88 => 'Ovary',
(int) 96 => 'Placenta',
(int) 104 => '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) 44,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000340699' => array(
'start' => '164559407',
'end' => '164792738',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-007'
),
'ENST00000367897' => array(
'start' => '164559823',
'end' => '164846955',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-002'
),
'ENST00000420696' => array(
'start' => '164559635',
'end' => '164851831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-001'
),
'ENST00000465089' => array(
'start' => '164812728',
'end' => '164850357',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-005'
),
'ENST00000467023' => array(
'start' => '164555584',
'end' => '164564015',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-008'
),
'ENST00000468104' => array(
'start' => '164605193',
'end' => '164847071',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-004'
),
'ENST00000474046' => array(
'start' => '164626036',
'end' => '164682483',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-003'
),
'ENST00000482110' => array(
'start' => '164630981',
'end' => '164799889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-009'
),
'ENST00000485769' => array(
'start' => '164559200',
'end' => '164560357',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-006'
),
'ENST00000496120' => array(
'start' => '164590350',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-016'
),
'ENST00000498497' => array(
'start' => '164559823',
'end' => '164684965',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-010'
),
'ENST00000540236' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-201'
),
'ENST00000558796' => array(
'start' => '164651896',
'end' => '164899296',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-011'
),
'ENST00000558837' => array(
'start' => '164772912',
'end' => '164807571',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-019'
),
'ENST00000559240' => array(
'start' => '164559823',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-012'
),
'ENST00000559560' => array(
'start' => '164787643',
'end' => '164799796',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-018'
),
'ENST00000559578' => array(
'start' => '164562805',
'end' => '164799883',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-013'
),
'ENST00000560469' => array(
'start' => '164576784',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-015'
),
'ENST00000560641' => array(
'start' => '164626006',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-017'
),
'ENST00000605467' => array(
'start' => '164560013',
'end' => '164560450',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-014'
),
'ENST00000612123' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-202'
),
'ENST00000362979' => array(
'start' => '164351273',
'end' => '164351388',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU5F-6P-201'
),
'ENST00000384354' => array(
'start' => '164639565',
'end' => '164639671',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-171P-201'
),
'ENST00000444896' => array(
'start' => '164356767',
'end' => '164357364',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HMGB3P6-001'
),
'ENST00000435192' => array(
'start' => '164343005',
'end' => '164343864',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NMNAT1P2-001'
),
'ENST00000602747' => array(
'start' => '164680085',
'end' => '164680799',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-477H21.2-001'
),
'ENST00000611960' => array(
'start' => '164589509',
'end' => '164589579',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.1-201'
),
'ENST00000619303' => array(
'start' => '164703026',
'end' => '164703309',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Metazoa_SRP.1-367'
),
'ENST00000613055' => array(
'start' => '164675324',
'end' => '164675424',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.2-201'
),
'ENSMUST00000064438' => array(
'start' => '168158732',
'end' => '168431504',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-005'
),
'ENSMUST00000072863' => array(
'start' => '168183573',
'end' => '168432169',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-201'
),
'ENSMUST00000097471' => array(
'start' => '168158370',
'end' => '168164662',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Pbx1-009'
),
'ENSMUST00000176309' => array(
'start' => '168120969',
'end' => '168405601',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-003'
),
'ENSMUST00000176482' => array(
'start' => '168208343',
'end' => '168431660',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-006'
),
'ENSMUST00000176540' => array(
'start' => '168153542',
'end' => '168431897',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-002'
),
'ENSMUST00000176790' => array(
'start' => '168158330',
'end' => '168431750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-004'
),
'ENSMUST00000176791' => array(
'start' => '168424442',
'end' => '168432169',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-007'
),
'ENSMUST00000188912' => array(
'start' => '168119364',
'end' => '168432270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-001'
),
'ENSMUST00000183804' => array(
'start' => '168490643',
'end' => '168490762',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir6348-201'
),
'ENSMUST00000184277' => array(
'start' => '168405551',
'end' => '168405621',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27264-201'
),
'ENSDART00000123426' => array(
'start' => '19615629',
'end' => '19619142',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'pbx1a-002'
),
'ENSDART00000122028' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-201'
),
'ENSDART00000125538' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-202'
),
'ENSDART00000129503' => array(
'start' => '2064454',
'end' => '2193121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-203'
)
),
'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_0007M6_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007M6_0001' => array(
'genes_in_region' => array(
'ENSG00000207082' => array(
[maximum depth reached]
),
'ENSG00000213070' => array(
[maximum depth reached]
),
'ENSG00000269887' => array(
[maximum depth reached]
),
'ENSG00000274155' => array(
[maximum depth reached]
),
'ENSG00000276359' => array(
[maximum depth reached]
),
'ENSG00000277116' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Bladder',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Bladder',
(int) 9 => 'Breast',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Ovary',
(int) 15 => 'Kidney',
(int) 16 => 'Heart',
(int) 17 => 'Muscle',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Brain',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Muscle',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Lung',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adipose',
(int) 56 => 'Adrenal',
(int) 57 => 'Bladder',
(int) 58 => 'Brain',
(int) 59 => 'Breast',
(int) 60 => 'Colon',
(int) 61 => 'Heart',
(int) 62 => 'Kidney',
(int) 63 => 'Liver',
(int) 64 => 'Lung',
(int) 65 => 'Muscle',
(int) 66 => 'Ovary',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Kidney',
(int) 70 => 'Kidney',
(int) 71 => 'Muscle',
(int) 72 => 'Brain',
(int) 73 => 'Heart',
(int) 74 => 'Muscle'
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
'ENSDARG00000086991' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Muscle'
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
'ENSDARG00000089550' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Liver',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Kidney'
)
)
)
$gene_desc_arr = array(
'ENSG00000185630' => 'pre-B-cell leukemia homeobox 1',
'ENSG00000199849' => 'RNA, U5F small nuclear 6, pseudogene',
'ENSG00000207082' => 'RNA, U6 small nuclear 171, pseudogene',
'ENSG00000213070' => 'high mobility group box 3 pseudogene 6',
'ENSG00000225719' => 'NMNAT1 pseudogene 2',
'ENSG00000269887' => null,
'ENSG00000274155' => null,
'ENSG00000276359' => 'Metazoan signal recognition particle RNA',
'ENSG00000277116' => null,
'ENSMUSG00000052534' => 'pre B cell leukemia homeobox 1',
'ENSMUSG00000098407' => 'microRNA 6348',
'ENSMUSG00000099251' => 'predicted gene, 27264',
'ENSDARG00000086991' => null,
'ENSDARG00000089550' => 'pre-B-cell leukemia transcription factor 1b'
)
$gene_name_arr = array(
'ENSG00000185630' => 'PBX1',
'ENSG00000199849' => 'RNU5F-6P',
'ENSG00000207082' => 'RNU6-171P',
'ENSG00000213070' => 'HMGB3P6',
'ENSG00000225719' => 'NMNAT1P2',
'ENSG00000269887' => 'RP11-477H21.2',
'ENSG00000274155' => 'AL391001.1',
'ENSG00000276359' => 'Metazoa_SRP',
'ENSG00000277116' => 'AL391001.2',
'ENSMUSG00000052534' => 'Pbx1',
'ENSMUSG00000098407' => 'Mir6348',
'ENSMUSG00000099251' => 'Gm27264',
'ENSDARG00000086991' => 'pbx1a',
'ENSDARG00000089550' => 'pbx1b'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '164054328',
'seq_end' => '164712505',
'region_length' => '658177',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0002',
'tax_id' => '10090',
'chromosome' => '1',
'seq_start' => '168288295',
'seq_end' => '168909082',
'region_length' => '620787',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0003',
'tax_id' => '7955',
'chromosome' => '2',
'seq_start' => '19567218',
'seq_end' => '19674228',
'region_length' => '107010',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '1184177',
'seq_end' => '1184377',
'region_length' => '200',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0005',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '2040548',
'seq_end' => '2134418',
'region_length' => '93870',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 7 => 'Adrenal',
(int) 13 => 'Bladder',
(int) 18 => 'Brain',
(int) 26 => 'Breast',
(int) 34 => 'Colon',
(int) 41 => 'Heart',
(int) 50 => 'Kidney',
(int) 62 => 'Liver',
(int) 70 => 'Lung',
(int) 77 => 'Muscle',
(int) 88 => 'Ovary',
(int) 96 => 'Placenta',
(int) 104 => '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) 44
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000340699' => array(
'start' => '164559407',
'end' => '164792738',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-007'
),
'ENST00000367897' => array(
'start' => '164559823',
'end' => '164846955',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-002'
),
'ENST00000420696' => array(
'start' => '164559635',
'end' => '164851831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-001'
),
'ENST00000465089' => array(
'start' => '164812728',
'end' => '164850357',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-005'
),
'ENST00000467023' => array(
'start' => '164555584',
'end' => '164564015',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-008'
),
'ENST00000468104' => array(
'start' => '164605193',
'end' => '164847071',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-004'
),
'ENST00000474046' => array(
'start' => '164626036',
'end' => '164682483',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-003'
),
'ENST00000482110' => array(
'start' => '164630981',
'end' => '164799889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-009'
),
'ENST00000485769' => array(
'start' => '164559200',
'end' => '164560357',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-006'
),
'ENST00000496120' => array(
'start' => '164590350',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-016'
),
'ENST00000498497' => array(
'start' => '164559823',
'end' => '164684965',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-010'
),
'ENST00000540236' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-201'
),
'ENST00000558796' => array(
'start' => '164651896',
'end' => '164899296',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-011'
),
'ENST00000558837' => array(
'start' => '164772912',
'end' => '164807571',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-019'
),
'ENST00000559240' => array(
'start' => '164559823',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-012'
),
'ENST00000559560' => array(
'start' => '164787643',
'end' => '164799796',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-018'
),
'ENST00000559578' => array(
'start' => '164562805',
'end' => '164799883',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-013'
),
'ENST00000560469' => array(
'start' => '164576784',
'end' => '164847101',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PBX1-015'
),
'ENST00000560641' => array(
'start' => '164626006',
'end' => '164848522',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-017'
),
'ENST00000605467' => array(
'start' => '164560013',
'end' => '164560450',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PBX1-014'
),
'ENST00000612123' => array(
'start' => '164792492',
'end' => '164851821',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PBX1-202'
),
'ENST00000362979' => array(
'start' => '164351273',
'end' => '164351388',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU5F-6P-201'
),
'ENST00000384354' => array(
'start' => '164639565',
'end' => '164639671',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-171P-201'
),
'ENST00000444896' => array(
'start' => '164356767',
'end' => '164357364',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HMGB3P6-001'
),
'ENST00000435192' => array(
'start' => '164343005',
'end' => '164343864',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NMNAT1P2-001'
),
'ENST00000602747' => array(
'start' => '164680085',
'end' => '164680799',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-477H21.2-001'
),
'ENST00000611960' => array(
'start' => '164589509',
'end' => '164589579',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.1-201'
),
'ENST00000619303' => array(
'start' => '164703026',
'end' => '164703309',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Metazoa_SRP.1-367'
),
'ENST00000613055' => array(
'start' => '164675324',
'end' => '164675424',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL391001.2-201'
),
'ENSMUST00000064438' => array(
'start' => '168158732',
'end' => '168431504',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-005'
),
'ENSMUST00000072863' => array(
'start' => '168183573',
'end' => '168432169',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-201'
),
'ENSMUST00000097471' => array(
'start' => '168158370',
'end' => '168164662',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Pbx1-009'
),
'ENSMUST00000176309' => array(
'start' => '168120969',
'end' => '168405601',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-003'
),
'ENSMUST00000176482' => array(
'start' => '168208343',
'end' => '168431660',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-006'
),
'ENSMUST00000176540' => array(
'start' => '168153542',
'end' => '168431897',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-002'
),
'ENSMUST00000176790' => array(
'start' => '168158330',
'end' => '168431750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-004'
),
'ENSMUST00000176791' => array(
'start' => '168424442',
'end' => '168432169',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Pbx1-007'
),
'ENSMUST00000188912' => array(
'start' => '168119364',
'end' => '168432270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Pbx1-001'
),
'ENSMUST00000183804' => array(
'start' => '168490643',
'end' => '168490762',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir6348-201'
),
'ENSMUST00000184277' => array(
'start' => '168405551',
'end' => '168405621',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27264-201'
),
'ENSDART00000123426' => array(
'start' => '19615629',
'end' => '19619142',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'pbx1a-002'
),
'ENSDART00000122028' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-201'
),
'ENSDART00000125538' => array(
'start' => '2064421',
'end' => '2193122',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-202'
),
'ENSDART00000129503' => array(
'start' => '2064454',
'end' => '2193121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'pbx1b-203'
)
)
$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_0007M6_0001' => array(
'genes_in_region' => array(
'ENSG00000207082' => array(
[maximum depth reached]
),
'ENSG00000213070' => array(
[maximum depth reached]
),
'ENSG00000269887' => array(
[maximum depth reached]
),
'ENSG00000274155' => array(
[maximum depth reached]
),
'ENSG00000276359' => array(
[maximum depth reached]
),
'ENSG00000277116' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Bladder',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Bladder',
(int) 9 => 'Breast',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Ovary',
(int) 15 => 'Kidney',
(int) 16 => 'Heart',
(int) 17 => 'Muscle',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Brain',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Muscle',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Lung',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adipose',
(int) 56 => 'Adrenal',
(int) 57 => 'Bladder',
(int) 58 => 'Brain',
(int) 59 => 'Breast',
(int) 60 => 'Colon',
(int) 61 => 'Heart',
(int) 62 => 'Kidney',
(int) 63 => 'Liver',
(int) 64 => 'Lung',
(int) 65 => 'Muscle',
(int) 66 => 'Ovary',
(int) 67 => 'Placenta',
(int) 68 => 'Testis',
(int) 69 => 'Kidney',
(int) 70 => 'Kidney',
(int) 71 => 'Muscle',
(int) 72 => 'Brain',
(int) 73 => 'Heart',
(int) 74 => 'Muscle'
)
),
'CIL_0007M6_0003' => array(
'genes_in_region' => array(
'ENSDARG00000086991' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Muscle'
)
),
'CIL_0007M6_0005' => array(
'genes_in_region' => array(
'ENSDARG00000089550' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Liver',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Kidney'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007M6_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '1184177',
'seq_end' => '1184377',
'region_length' => '200',
'region_type' => 'UCNEbase',
'el_id' => 'PBX1'
)
)
$gene_el = array(
'ENSDART00000123426' => array(
'Brain' => array(
'average_FPKM' => '1.804',
'stddev_FPKM' => '1.71'
),
'Heart' => array(
'average_FPKM' => '0.260',
'stddev_FPKM' => '0.29'
),
'Kidney' => array(
'average_FPKM' => '0.067',
'stddev_FPKM' => '0.03'
),
'Muscle' => array(
'average_FPKM' => '0.527',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000086991'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '1.804',
'stddev_FPKM' => '1.71'
),
'Heart' => array(
'average_FPKM' => '0.260',
'stddev_FPKM' => '0.29'
),
'Kidney' => array(
'average_FPKM' => '0.067',
'stddev_FPKM' => '0.03'
),
'Muscle' => array(
'average_FPKM' => '0.527',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000123426'
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 |
| PBX1 |
UCNEbase |
7955 |
6:1184177-1184377  |
| Gene | Transcript | Position | Biotype |
|---|
(RNU6-171P)