| Source ID |
Type |
Tax ID |
Position |
| ELTD1 |
UCNEbase |
7955 |
11:7877203-7877425  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007JZ_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_0007JZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000117114' => 'latrophilin 2',
'ENSG00000215875' => 'suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) pseudogene 20',
'ENSG00000223026' => 'RNA, 7SK small nuclear pseudogene 247',
'ENSG00000224494' => 'heterogeneous nuclear ribonucleoprotein A3 pseudogene 14',
'ENSG00000227288' => null,
'ENSG00000227960' => null,
'ENSG00000234683' => null,
'ENSG00000234953' => null,
'ENSG00000236676' => null,
'ENSG00000242598' => 'mediator complex subunit 28 pseudogene 8',
'ENSG00000274207' => null,
'ENSMUSG00000028184' => 'latrophilin 2',
'ENSMUSG00000065270' => 'predicted gene, 25127',
'ENSMUSG00000070342' => 'predicted gene 10287',
'ENSMUSG00000089269' => 'predicted gene, 26468'
),
'gene_name_arr' => array(
'ENSG00000117114' => 'LPHN2',
'ENSG00000215875' => 'ST13P20',
'ENSG00000223026' => 'RN7SKP247',
'ENSG00000224494' => 'HNRNPA3P14',
'ENSG00000227288' => 'RP5-837I24.1',
'ENSG00000227960' => 'RP5-837I24.6',
'ENSG00000234683' => 'RP5-837I24.5',
'ENSG00000234953' => 'RP5-837I24.2',
'ENSG00000236676' => 'RP5-837I24.4',
'ENSG00000242598' => 'MED28P8',
'ENSG00000274207' => 'AC113949.1',
'ENSMUSG00000028184' => 'Lphn2',
'ENSMUSG00000065270' => 'Gm25127',
'ENSMUSG00000070342' => 'Gm10287',
'ENSMUSG00000089269' => 'Gm26468'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 15 => 'Bladder',
(int) 19 => 'Brain',
(int) 36 => 'Breast',
(int) 44 => 'Colon',
(int) 55 => 'Heart',
(int) 65 => 'Kidney',
(int) 72 => 'Liver',
(int) 82 => 'Lung',
(int) 93 => 'Muscle',
(int) 103 => 'Ovary',
(int) 115 => 'Placenta',
(int) 122 => '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) 38,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000319517' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-004'
),
'ENST00000359929' => array(
'start' => '81699770',
'end' => '81991426',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-001'
),
'ENST00000370713' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-003'
),
'ENST00000370715' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-002'
),
'ENST00000370717' => array(
'start' => '81800397',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-201'
),
'ENST00000370721' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-005'
),
'ENST00000370723' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-011'
),
'ENST00000370725' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-010'
),
'ENST00000370727' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-009'
),
'ENST00000370728' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-007'
),
'ENST00000370730' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-008'
),
'ENST00000402328' => array(
'start' => '81979889',
'end' => '81992423',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-006'
),
'ENST00000449420' => array(
'start' => '81942969',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-012'
),
'ENST00000464551' => array(
'start' => '81988392',
'end' => '81990709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-020'
),
'ENST00000464775' => array(
'start' => '81979922',
'end' => '81990681',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-017'
),
'ENST00000468283' => array(
'start' => '81955767',
'end' => '81966435',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-016'
),
'ENST00000469377' => array(
'start' => '81306199',
'end' => '81992436',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-021'
),
'ENST00000472424' => array(
'start' => '81981853',
'end' => '81990840',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-019'
),
'ENST00000473719' => array(
'start' => '81306160',
'end' => '81735330',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-013'
),
'ENST00000492666' => array(
'start' => '81306192',
'end' => '81414384',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-015'
),
'ENST00000498776' => array(
'start' => '81984317',
'end' => '81985410',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-018'
),
'ENST00000447996' => array(
'start' => '81721693',
'end' => '81723068',
'transcript_biotype' => 'transcribed_processed_pseudogene',
'transcript_name' => 'ST13P20-001'
),
'ENST00000411094' => array(
'start' => '81251789',
'end' => '81252096',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP247-201'
),
'ENST00000444546' => array(
'start' => '81426456',
'end' => '81427605',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HNRNPA3P14-001'
),
'ENST00000448213' => array(
'start' => '81501794',
'end' => '81503468',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.1-001'
),
'ENST00000439024' => array(
'start' => '81505099',
'end' => '81506296',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP5-837I24.6-001'
),
'ENST00000438968' => array(
'start' => '81596157',
'end' => '81596506',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.5-001'
),
'ENST00000443939' => array(
'start' => '81513880',
'end' => '81557702',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.2-001'
),
'ENST00000430748' => array(
'start' => '81585941',
'end' => '81625713',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.4-001'
),
'ENST00000454831' => array(
'start' => '81557121',
'end' => '81557832',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'MED28P8-001'
),
'ENST00000616385' => array(
'start' => '81990753',
'end' => '81990806',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC113949.1-201'
),
'ENSMUST00000098518' => array(
'start' => '148888941',
'end' => '148989316',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-201'
),
'ENSMUST00000106128' => array(
'start' => '148815586',
'end' => '148954635',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-202'
),
'ENSMUST00000168352' => array(
'start' => '148815856',
'end' => '148822979',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-203'
),
'ENSMUST00000083336' => array(
'start' => '149028932',
'end' => '149029038',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm25127-201'
),
'ENSMUST00000093950' => array(
'start' => '149221693',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-201'
),
'ENSMUST00000180599' => array(
'start' => '149221687',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-001'
),
'ENSMUST00000158644' => array(
'start' => '149340903',
'end' => '149341008',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26468-201'
)
),
'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_0007JZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007JZ_0001' => array(
'genes_in_region' => array(
'ENSG00000117114' => array(
[maximum depth reached]
),
'ENSG00000215875' => array(
[maximum depth reached]
),
'ENSG00000224494' => array(
[maximum depth reached]
),
'ENSG00000227288' => array(
[maximum depth reached]
),
'ENSG00000227960' => array(
[maximum depth reached]
),
'ENSG00000234683' => array(
[maximum depth reached]
),
'ENSG00000234953' => array(
[maximum depth reached]
),
'ENSG00000236676' => array(
[maximum depth reached]
),
'ENSG00000242598' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Bladder',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Heart',
(int) 15 => 'Kidney',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Testis',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Liver',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Liver',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Brain',
(int) 36 => 'Kidney',
(int) 37 => 'Adrenal',
(int) 38 => 'Brain',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Ovary',
(int) 42 => 'Testis',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Testis',
(int) 49 => 'Adrenal',
(int) 50 => 'Bladder',
(int) 51 => 'Brain',
(int) 52 => 'Breast',
(int) 53 => 'Colon',
(int) 54 => 'Heart',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Brain',
(int) 62 => 'Colon',
(int) 63 => 'Heart',
(int) 64 => 'Kidney',
(int) 65 => 'Lung',
(int) 66 => 'Muscle',
(int) 67 => 'Testis',
(int) 68 => 'Brain',
(int) 69 => 'Colon',
(int) 70 => 'Heart',
(int) 71 => 'Lung',
(int) 72 => 'Muscle',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Brain',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Lung',
(int) 82 => 'Muscle',
(int) 83 => 'Testis',
(int) 84 => 'Brain',
(int) 85 => 'Heart',
(int) 86 => 'Testis',
(int) 87 => 'Brain',
(int) 88 => 'Colon',
(int) 89 => 'Heart',
(int) 90 => 'Ovary',
(int) 91 => 'Testis',
(int) 92 => 'Adrenal',
(int) 93 => 'Brain',
(int) 94 => 'Heart',
(int) 95 => 'Lung',
(int) 96 => 'Testis'
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
'ENSMUSG00000028184' => array(
[maximum depth reached]
),
'ENSMUSG00000065270' => array(
[maximum depth reached]
),
'ENSMUSG00000070342' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Ovary',
(int) 2 => 'Adrenal',
(int) 3 => 'Brain',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Testis',
(int) 8 => 'Colon',
(int) 9 => 'Liver',
(int) 10 => 'Muscle',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Liver',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(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 => 'Placenta',
(int) 41 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000117114' => 'latrophilin 2',
'ENSG00000215875' => 'suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) pseudogene 20',
'ENSG00000223026' => 'RNA, 7SK small nuclear pseudogene 247',
'ENSG00000224494' => 'heterogeneous nuclear ribonucleoprotein A3 pseudogene 14',
'ENSG00000227288' => null,
'ENSG00000227960' => null,
'ENSG00000234683' => null,
'ENSG00000234953' => null,
'ENSG00000236676' => null,
'ENSG00000242598' => 'mediator complex subunit 28 pseudogene 8',
'ENSG00000274207' => null,
'ENSMUSG00000028184' => 'latrophilin 2',
'ENSMUSG00000065270' => 'predicted gene, 25127',
'ENSMUSG00000070342' => 'predicted gene 10287',
'ENSMUSG00000089269' => 'predicted gene, 26468'
)
$gene_name_arr = array(
'ENSG00000117114' => 'LPHN2',
'ENSG00000215875' => 'ST13P20',
'ENSG00000223026' => 'RN7SKP247',
'ENSG00000224494' => 'HNRNPA3P14',
'ENSG00000227288' => 'RP5-837I24.1',
'ENSG00000227960' => 'RP5-837I24.6',
'ENSG00000234683' => 'RP5-837I24.5',
'ENSG00000234953' => 'RP5-837I24.2',
'ENSG00000236676' => 'RP5-837I24.4',
'ENSG00000242598' => 'MED28P8',
'ENSG00000274207' => 'AC113949.1',
'ENSMUSG00000028184' => 'Lphn2',
'ENSMUSG00000065270' => 'Gm25127',
'ENSMUSG00000070342' => 'Gm10287',
'ENSMUSG00000089269' => 'Gm26468'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '81231098',
'seq_end' => '81907429',
'region_length' => '676331',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0002',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '81907430',
'seq_end' => '81991837',
'region_length' => '84407',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0003',
'tax_id' => '10090',
'chromosome' => '3',
'seq_start' => '148816444',
'seq_end' => '149524524',
'region_length' => '708080',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0004',
'tax_id' => '7955',
'chromosome' => '11',
'seq_start' => '7877203',
'seq_end' => '7877425',
'region_length' => '222',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 15 => 'Bladder',
(int) 19 => 'Brain',
(int) 36 => 'Breast',
(int) 44 => 'Colon',
(int) 55 => 'Heart',
(int) 65 => 'Kidney',
(int) 72 => 'Liver',
(int) 82 => 'Lung',
(int) 93 => 'Muscle',
(int) 103 => 'Ovary',
(int) 115 => 'Placenta',
(int) 122 => '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) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000319517' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-004'
),
'ENST00000359929' => array(
'start' => '81699770',
'end' => '81991426',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-001'
),
'ENST00000370713' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-003'
),
'ENST00000370715' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-002'
),
'ENST00000370717' => array(
'start' => '81800397',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-201'
),
'ENST00000370721' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-005'
),
'ENST00000370723' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-011'
),
'ENST00000370725' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-010'
),
'ENST00000370727' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-009'
),
'ENST00000370728' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-007'
),
'ENST00000370730' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-008'
),
'ENST00000402328' => array(
'start' => '81979889',
'end' => '81992423',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-006'
),
'ENST00000449420' => array(
'start' => '81942969',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-012'
),
'ENST00000464551' => array(
'start' => '81988392',
'end' => '81990709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-020'
),
'ENST00000464775' => array(
'start' => '81979922',
'end' => '81990681',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-017'
),
'ENST00000468283' => array(
'start' => '81955767',
'end' => '81966435',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-016'
),
'ENST00000469377' => array(
'start' => '81306199',
'end' => '81992436',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-021'
),
'ENST00000472424' => array(
'start' => '81981853',
'end' => '81990840',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-019'
),
'ENST00000473719' => array(
'start' => '81306160',
'end' => '81735330',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-013'
),
'ENST00000492666' => array(
'start' => '81306192',
'end' => '81414384',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-015'
),
'ENST00000498776' => array(
'start' => '81984317',
'end' => '81985410',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-018'
),
'ENST00000447996' => array(
'start' => '81721693',
'end' => '81723068',
'transcript_biotype' => 'transcribed_processed_pseudogene',
'transcript_name' => 'ST13P20-001'
),
'ENST00000411094' => array(
'start' => '81251789',
'end' => '81252096',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP247-201'
),
'ENST00000444546' => array(
'start' => '81426456',
'end' => '81427605',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HNRNPA3P14-001'
),
'ENST00000448213' => array(
'start' => '81501794',
'end' => '81503468',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.1-001'
),
'ENST00000439024' => array(
'start' => '81505099',
'end' => '81506296',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP5-837I24.6-001'
),
'ENST00000438968' => array(
'start' => '81596157',
'end' => '81596506',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.5-001'
),
'ENST00000443939' => array(
'start' => '81513880',
'end' => '81557702',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.2-001'
),
'ENST00000430748' => array(
'start' => '81585941',
'end' => '81625713',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.4-001'
),
'ENST00000454831' => array(
'start' => '81557121',
'end' => '81557832',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'MED28P8-001'
),
'ENST00000616385' => array(
'start' => '81990753',
'end' => '81990806',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC113949.1-201'
),
'ENSMUST00000098518' => array(
'start' => '148888941',
'end' => '148989316',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-201'
),
'ENSMUST00000106128' => array(
'start' => '148815586',
'end' => '148954635',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-202'
),
'ENSMUST00000168352' => array(
'start' => '148815856',
'end' => '148822979',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-203'
),
'ENSMUST00000083336' => array(
'start' => '149028932',
'end' => '149029038',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm25127-201'
),
'ENSMUST00000093950' => array(
'start' => '149221693',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-201'
),
'ENSMUST00000180599' => array(
'start' => '149221687',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-001'
),
'ENSMUST00000158644' => array(
'start' => '149340903',
'end' => '149341008',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26468-201'
)
)
$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_0007JZ_0001' => array(
'genes_in_region' => array(
'ENSG00000117114' => array(
[maximum depth reached]
),
'ENSG00000215875' => array(
[maximum depth reached]
),
'ENSG00000224494' => array(
[maximum depth reached]
),
'ENSG00000227288' => array(
[maximum depth reached]
),
'ENSG00000227960' => array(
[maximum depth reached]
),
'ENSG00000234683' => array(
[maximum depth reached]
),
'ENSG00000234953' => array(
[maximum depth reached]
),
'ENSG00000236676' => array(
[maximum depth reached]
),
'ENSG00000242598' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Bladder',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Heart',
(int) 15 => 'Kidney',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Testis',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Liver',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Liver',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Brain',
(int) 36 => 'Kidney',
(int) 37 => 'Adrenal',
(int) 38 => 'Brain',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Ovary',
(int) 42 => 'Testis',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Testis',
(int) 49 => 'Adrenal',
(int) 50 => 'Bladder',
(int) 51 => 'Brain',
(int) 52 => 'Breast',
(int) 53 => 'Colon',
(int) 54 => 'Heart',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Brain',
(int) 62 => 'Colon',
(int) 63 => 'Heart',
(int) 64 => 'Kidney',
(int) 65 => 'Lung',
(int) 66 => 'Muscle',
(int) 67 => 'Testis',
(int) 68 => 'Brain',
(int) 69 => 'Colon',
(int) 70 => 'Heart',
(int) 71 => 'Lung',
(int) 72 => 'Muscle',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Brain',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Lung',
(int) 82 => 'Muscle',
(int) 83 => 'Testis',
(int) 84 => 'Brain',
(int) 85 => 'Heart',
(int) 86 => 'Testis',
(int) 87 => 'Brain',
(int) 88 => 'Colon',
(int) 89 => 'Heart',
(int) 90 => 'Ovary',
(int) 91 => 'Testis',
(int) 92 => 'Adrenal',
(int) 93 => 'Brain',
(int) 94 => 'Heart',
(int) 95 => 'Lung',
(int) 96 => 'Testis'
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
'ENSMUSG00000028184' => array(
[maximum depth reached]
),
'ENSMUSG00000065270' => array(
[maximum depth reached]
),
'ENSMUSG00000070342' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Ovary',
(int) 2 => 'Adrenal',
(int) 3 => 'Brain',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Testis',
(int) 8 => 'Colon',
(int) 9 => 'Liver',
(int) 10 => 'Muscle',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Liver',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(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 => 'Placenta',
(int) 41 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0004',
'tax_id' => '7955',
'chromosome' => '11',
'seq_start' => '7877203',
'seq_end' => '7877425',
'region_length' => '222',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
)
$gene_el = array(
'ENSMUST00000093950' => array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.040',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.098',
'stddev_FPKM' => '0.08'
),
'Breast' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.040',
'stddev_FPKM' => '0.02'
),
'Kidney' => array(
'average_FPKM' => '0.032',
'stddev_FPKM' => '0.02'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.066',
'stddev_FPKM' => '0.04'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.079',
'stddev_FPKM' => '0.03'
)
),
'ENSMUST00000180599' => array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.007',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.017',
'stddev_FPKM' => '0.01'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.01'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.004',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.013',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSMUSG00000070342'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.007',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.017',
'stddev_FPKM' => '0.01'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.01'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.004',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.013',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSMUST00000180599'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007JZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000117114' => 'latrophilin 2',
'ENSG00000215875' => 'suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) pseudogene 20',
'ENSG00000223026' => 'RNA, 7SK small nuclear pseudogene 247',
'ENSG00000224494' => 'heterogeneous nuclear ribonucleoprotein A3 pseudogene 14',
'ENSG00000227288' => null,
'ENSG00000227960' => null,
'ENSG00000234683' => null,
'ENSG00000234953' => null,
'ENSG00000236676' => null,
'ENSG00000242598' => 'mediator complex subunit 28 pseudogene 8',
'ENSG00000274207' => null,
'ENSMUSG00000028184' => 'latrophilin 2',
'ENSMUSG00000065270' => 'predicted gene, 25127',
'ENSMUSG00000070342' => 'predicted gene 10287',
'ENSMUSG00000089269' => 'predicted gene, 26468'
),
'gene_name_arr' => array(
'ENSG00000117114' => 'LPHN2',
'ENSG00000215875' => 'ST13P20',
'ENSG00000223026' => 'RN7SKP247',
'ENSG00000224494' => 'HNRNPA3P14',
'ENSG00000227288' => 'RP5-837I24.1',
'ENSG00000227960' => 'RP5-837I24.6',
'ENSG00000234683' => 'RP5-837I24.5',
'ENSG00000234953' => 'RP5-837I24.2',
'ENSG00000236676' => 'RP5-837I24.4',
'ENSG00000242598' => 'MED28P8',
'ENSG00000274207' => 'AC113949.1',
'ENSMUSG00000028184' => 'Lphn2',
'ENSMUSG00000065270' => 'Gm25127',
'ENSMUSG00000070342' => 'Gm10287',
'ENSMUSG00000089269' => 'Gm26468'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 15 => 'Bladder',
(int) 19 => 'Brain',
(int) 36 => 'Breast',
(int) 44 => 'Colon',
(int) 55 => 'Heart',
(int) 65 => 'Kidney',
(int) 72 => 'Liver',
(int) 82 => 'Lung',
(int) 93 => 'Muscle',
(int) 103 => 'Ovary',
(int) 115 => 'Placenta',
(int) 122 => '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) 38,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000319517' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-004'
),
'ENST00000359929' => array(
'start' => '81699770',
'end' => '81991426',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-001'
),
'ENST00000370713' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-003'
),
'ENST00000370715' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-002'
),
'ENST00000370717' => array(
'start' => '81800397',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-201'
),
'ENST00000370721' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-005'
),
'ENST00000370723' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-011'
),
'ENST00000370725' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-010'
),
'ENST00000370727' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-009'
),
'ENST00000370728' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-007'
),
'ENST00000370730' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-008'
),
'ENST00000402328' => array(
'start' => '81979889',
'end' => '81992423',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-006'
),
'ENST00000449420' => array(
'start' => '81942969',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-012'
),
'ENST00000464551' => array(
'start' => '81988392',
'end' => '81990709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-020'
),
'ENST00000464775' => array(
'start' => '81979922',
'end' => '81990681',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-017'
),
'ENST00000468283' => array(
'start' => '81955767',
'end' => '81966435',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-016'
),
'ENST00000469377' => array(
'start' => '81306199',
'end' => '81992436',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-021'
),
'ENST00000472424' => array(
'start' => '81981853',
'end' => '81990840',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-019'
),
'ENST00000473719' => array(
'start' => '81306160',
'end' => '81735330',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-013'
),
'ENST00000492666' => array(
'start' => '81306192',
'end' => '81414384',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-015'
),
'ENST00000498776' => array(
'start' => '81984317',
'end' => '81985410',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-018'
),
'ENST00000447996' => array(
'start' => '81721693',
'end' => '81723068',
'transcript_biotype' => 'transcribed_processed_pseudogene',
'transcript_name' => 'ST13P20-001'
),
'ENST00000411094' => array(
'start' => '81251789',
'end' => '81252096',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP247-201'
),
'ENST00000444546' => array(
'start' => '81426456',
'end' => '81427605',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HNRNPA3P14-001'
),
'ENST00000448213' => array(
'start' => '81501794',
'end' => '81503468',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.1-001'
),
'ENST00000439024' => array(
'start' => '81505099',
'end' => '81506296',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP5-837I24.6-001'
),
'ENST00000438968' => array(
'start' => '81596157',
'end' => '81596506',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.5-001'
),
'ENST00000443939' => array(
'start' => '81513880',
'end' => '81557702',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.2-001'
),
'ENST00000430748' => array(
'start' => '81585941',
'end' => '81625713',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.4-001'
),
'ENST00000454831' => array(
'start' => '81557121',
'end' => '81557832',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'MED28P8-001'
),
'ENST00000616385' => array(
'start' => '81990753',
'end' => '81990806',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC113949.1-201'
),
'ENSMUST00000098518' => array(
'start' => '148888941',
'end' => '148989316',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-201'
),
'ENSMUST00000106128' => array(
'start' => '148815586',
'end' => '148954635',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-202'
),
'ENSMUST00000168352' => array(
'start' => '148815856',
'end' => '148822979',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-203'
),
'ENSMUST00000083336' => array(
'start' => '149028932',
'end' => '149029038',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm25127-201'
),
'ENSMUST00000093950' => array(
'start' => '149221693',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-201'
),
'ENSMUST00000180599' => array(
'start' => '149221687',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-001'
),
'ENSMUST00000158644' => array(
'start' => '149340903',
'end' => '149341008',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26468-201'
)
),
'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_0007JZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007JZ_0001' => array(
'genes_in_region' => array(
'ENSG00000117114' => array(
[maximum depth reached]
),
'ENSG00000215875' => array(
[maximum depth reached]
),
'ENSG00000224494' => array(
[maximum depth reached]
),
'ENSG00000227288' => array(
[maximum depth reached]
),
'ENSG00000227960' => array(
[maximum depth reached]
),
'ENSG00000234683' => array(
[maximum depth reached]
),
'ENSG00000234953' => array(
[maximum depth reached]
),
'ENSG00000236676' => array(
[maximum depth reached]
),
'ENSG00000242598' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Bladder',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Heart',
(int) 15 => 'Kidney',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Testis',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Liver',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Liver',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Brain',
(int) 36 => 'Kidney',
(int) 37 => 'Adrenal',
(int) 38 => 'Brain',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Ovary',
(int) 42 => 'Testis',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Testis',
(int) 49 => 'Adrenal',
(int) 50 => 'Bladder',
(int) 51 => 'Brain',
(int) 52 => 'Breast',
(int) 53 => 'Colon',
(int) 54 => 'Heart',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Brain',
(int) 62 => 'Colon',
(int) 63 => 'Heart',
(int) 64 => 'Kidney',
(int) 65 => 'Lung',
(int) 66 => 'Muscle',
(int) 67 => 'Testis',
(int) 68 => 'Brain',
(int) 69 => 'Colon',
(int) 70 => 'Heart',
(int) 71 => 'Lung',
(int) 72 => 'Muscle',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Brain',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Lung',
(int) 82 => 'Muscle',
(int) 83 => 'Testis',
(int) 84 => 'Brain',
(int) 85 => 'Heart',
(int) 86 => 'Testis',
(int) 87 => 'Brain',
(int) 88 => 'Colon',
(int) 89 => 'Heart',
(int) 90 => 'Ovary',
(int) 91 => 'Testis',
(int) 92 => 'Adrenal',
(int) 93 => 'Brain',
(int) 94 => 'Heart',
(int) 95 => 'Lung',
(int) 96 => 'Testis'
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
'ENSMUSG00000028184' => array(
[maximum depth reached]
),
'ENSMUSG00000065270' => array(
[maximum depth reached]
),
'ENSMUSG00000070342' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Ovary',
(int) 2 => 'Adrenal',
(int) 3 => 'Brain',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Testis',
(int) 8 => 'Colon',
(int) 9 => 'Liver',
(int) 10 => 'Muscle',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Liver',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(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 => 'Placenta',
(int) 41 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000117114' => 'latrophilin 2',
'ENSG00000215875' => 'suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) pseudogene 20',
'ENSG00000223026' => 'RNA, 7SK small nuclear pseudogene 247',
'ENSG00000224494' => 'heterogeneous nuclear ribonucleoprotein A3 pseudogene 14',
'ENSG00000227288' => null,
'ENSG00000227960' => null,
'ENSG00000234683' => null,
'ENSG00000234953' => null,
'ENSG00000236676' => null,
'ENSG00000242598' => 'mediator complex subunit 28 pseudogene 8',
'ENSG00000274207' => null,
'ENSMUSG00000028184' => 'latrophilin 2',
'ENSMUSG00000065270' => 'predicted gene, 25127',
'ENSMUSG00000070342' => 'predicted gene 10287',
'ENSMUSG00000089269' => 'predicted gene, 26468'
)
$gene_name_arr = array(
'ENSG00000117114' => 'LPHN2',
'ENSG00000215875' => 'ST13P20',
'ENSG00000223026' => 'RN7SKP247',
'ENSG00000224494' => 'HNRNPA3P14',
'ENSG00000227288' => 'RP5-837I24.1',
'ENSG00000227960' => 'RP5-837I24.6',
'ENSG00000234683' => 'RP5-837I24.5',
'ENSG00000234953' => 'RP5-837I24.2',
'ENSG00000236676' => 'RP5-837I24.4',
'ENSG00000242598' => 'MED28P8',
'ENSG00000274207' => 'AC113949.1',
'ENSMUSG00000028184' => 'Lphn2',
'ENSMUSG00000065270' => 'Gm25127',
'ENSMUSG00000070342' => 'Gm10287',
'ENSMUSG00000089269' => 'Gm26468'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '81231098',
'seq_end' => '81907429',
'region_length' => '676331',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0002',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '81907430',
'seq_end' => '81991837',
'region_length' => '84407',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0003',
'tax_id' => '10090',
'chromosome' => '3',
'seq_start' => '148816444',
'seq_end' => '149524524',
'region_length' => '708080',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0004',
'tax_id' => '7955',
'chromosome' => '11',
'seq_start' => '7877203',
'seq_end' => '7877425',
'region_length' => '222',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 15 => 'Bladder',
(int) 19 => 'Brain',
(int) 36 => 'Breast',
(int) 44 => 'Colon',
(int) 55 => 'Heart',
(int) 65 => 'Kidney',
(int) 72 => 'Liver',
(int) 82 => 'Lung',
(int) 93 => 'Muscle',
(int) 103 => 'Ovary',
(int) 115 => 'Placenta',
(int) 122 => '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) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000319517' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-004'
),
'ENST00000359929' => array(
'start' => '81699770',
'end' => '81991426',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-001'
),
'ENST00000370713' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-003'
),
'ENST00000370715' => array(
'start' => '81800397',
'end' => '81992196',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-002'
),
'ENST00000370717' => array(
'start' => '81800397',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-201'
),
'ENST00000370721' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-005'
),
'ENST00000370723' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-011'
),
'ENST00000370725' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-010'
),
'ENST00000370727' => array(
'start' => '81306166',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-009'
),
'ENST00000370728' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-007'
),
'ENST00000370730' => array(
'start' => '81306166',
'end' => '81992422',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-008'
),
'ENST00000402328' => array(
'start' => '81979889',
'end' => '81992423',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-006'
),
'ENST00000449420' => array(
'start' => '81942969',
'end' => '81991368',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LPHN2-012'
),
'ENST00000464551' => array(
'start' => '81988392',
'end' => '81990709',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-020'
),
'ENST00000464775' => array(
'start' => '81979922',
'end' => '81990681',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-017'
),
'ENST00000468283' => array(
'start' => '81955767',
'end' => '81966435',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-016'
),
'ENST00000469377' => array(
'start' => '81306199',
'end' => '81992436',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-021'
),
'ENST00000472424' => array(
'start' => '81981853',
'end' => '81990840',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-019'
),
'ENST00000473719' => array(
'start' => '81306160',
'end' => '81735330',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-013'
),
'ENST00000492666' => array(
'start' => '81306192',
'end' => '81414384',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-015'
),
'ENST00000498776' => array(
'start' => '81984317',
'end' => '81985410',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LPHN2-018'
),
'ENST00000447996' => array(
'start' => '81721693',
'end' => '81723068',
'transcript_biotype' => 'transcribed_processed_pseudogene',
'transcript_name' => 'ST13P20-001'
),
'ENST00000411094' => array(
'start' => '81251789',
'end' => '81252096',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP247-201'
),
'ENST00000444546' => array(
'start' => '81426456',
'end' => '81427605',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'HNRNPA3P14-001'
),
'ENST00000448213' => array(
'start' => '81501794',
'end' => '81503468',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.1-001'
),
'ENST00000439024' => array(
'start' => '81505099',
'end' => '81506296',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP5-837I24.6-001'
),
'ENST00000438968' => array(
'start' => '81596157',
'end' => '81596506',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP5-837I24.5-001'
),
'ENST00000443939' => array(
'start' => '81513880',
'end' => '81557702',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.2-001'
),
'ENST00000430748' => array(
'start' => '81585941',
'end' => '81625713',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP5-837I24.4-001'
),
'ENST00000454831' => array(
'start' => '81557121',
'end' => '81557832',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'MED28P8-001'
),
'ENST00000616385' => array(
'start' => '81990753',
'end' => '81990806',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC113949.1-201'
),
'ENSMUST00000098518' => array(
'start' => '148888941',
'end' => '148989316',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-201'
),
'ENSMUST00000106128' => array(
'start' => '148815586',
'end' => '148954635',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-202'
),
'ENSMUST00000168352' => array(
'start' => '148815856',
'end' => '148822979',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lphn2-203'
),
'ENSMUST00000083336' => array(
'start' => '149028932',
'end' => '149029038',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm25127-201'
),
'ENSMUST00000093950' => array(
'start' => '149221693',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-201'
),
'ENSMUST00000180599' => array(
'start' => '149221687',
'end' => '149225745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm10287-001'
),
'ENSMUST00000158644' => array(
'start' => '149340903',
'end' => '149341008',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'Gm26468-201'
)
)
$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_0007JZ_0001' => array(
'genes_in_region' => array(
'ENSG00000117114' => array(
[maximum depth reached]
),
'ENSG00000215875' => array(
[maximum depth reached]
),
'ENSG00000224494' => array(
[maximum depth reached]
),
'ENSG00000227288' => array(
[maximum depth reached]
),
'ENSG00000227960' => array(
[maximum depth reached]
),
'ENSG00000234683' => array(
[maximum depth reached]
),
'ENSG00000234953' => array(
[maximum depth reached]
),
'ENSG00000236676' => array(
[maximum depth reached]
),
'ENSG00000242598' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Bladder',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Heart',
(int) 15 => 'Kidney',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Adipose',
(int) 21 => 'Adrenal',
(int) 22 => 'Lung',
(int) 23 => 'Muscle',
(int) 24 => 'Testis',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Liver',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Liver',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Brain',
(int) 36 => 'Kidney',
(int) 37 => 'Adrenal',
(int) 38 => 'Brain',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Ovary',
(int) 42 => 'Testis',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Testis',
(int) 49 => 'Adrenal',
(int) 50 => 'Bladder',
(int) 51 => 'Brain',
(int) 52 => 'Breast',
(int) 53 => 'Colon',
(int) 54 => 'Heart',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Testis',
(int) 60 => 'Adrenal',
(int) 61 => 'Brain',
(int) 62 => 'Colon',
(int) 63 => 'Heart',
(int) 64 => 'Kidney',
(int) 65 => 'Lung',
(int) 66 => 'Muscle',
(int) 67 => 'Testis',
(int) 68 => 'Brain',
(int) 69 => 'Colon',
(int) 70 => 'Heart',
(int) 71 => 'Lung',
(int) 72 => 'Muscle',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Brain',
(int) 77 => 'Placenta',
(int) 78 => 'Testis',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Lung',
(int) 82 => 'Muscle',
(int) 83 => 'Testis',
(int) 84 => 'Brain',
(int) 85 => 'Heart',
(int) 86 => 'Testis',
(int) 87 => 'Brain',
(int) 88 => 'Colon',
(int) 89 => 'Heart',
(int) 90 => 'Ovary',
(int) 91 => 'Testis',
(int) 92 => 'Adrenal',
(int) 93 => 'Brain',
(int) 94 => 'Heart',
(int) 95 => 'Lung',
(int) 96 => 'Testis'
)
),
'CIL_0007JZ_0003' => array(
'genes_in_region' => array(
'ENSMUSG00000028184' => array(
[maximum depth reached]
),
'ENSMUSG00000065270' => array(
[maximum depth reached]
),
'ENSMUSG00000070342' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Ovary',
(int) 2 => 'Adrenal',
(int) 3 => 'Brain',
(int) 4 => 'Liver',
(int) 5 => 'Lung',
(int) 6 => 'Ovary',
(int) 7 => 'Testis',
(int) 8 => 'Colon',
(int) 9 => 'Liver',
(int) 10 => 'Muscle',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Liver',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(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 => 'Placenta',
(int) 41 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007JZ_0004',
'tax_id' => '7955',
'chromosome' => '11',
'seq_start' => '7877203',
'seq_end' => '7877425',
'region_length' => '222',
'region_type' => 'UCNEbase',
'el_id' => 'ELTD1'
)
)
$gene_el = array(
'ENSMUST00000093950' => array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.040',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.098',
'stddev_FPKM' => '0.08'
),
'Breast' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.040',
'stddev_FPKM' => '0.02'
),
'Kidney' => array(
'average_FPKM' => '0.032',
'stddev_FPKM' => '0.02'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.066',
'stddev_FPKM' => '0.04'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.079',
'stddev_FPKM' => '0.03'
)
),
'ENSMUST00000180599' => array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.007',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.017',
'stddev_FPKM' => '0.01'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.01'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.004',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.013',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSMUSG00000070342'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.016',
'stddev_FPKM' => '0.01'
),
'Adrenal' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.03'
),
'Bladder' => array(
'average_FPKM' => '0.002',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.007',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.028',
'stddev_FPKM' => '0.01'
),
'Colon' => array(
'average_FPKM' => '0.024',
'stddev_FPKM' => '0.01'
),
'Heart' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.017',
'stddev_FPKM' => '0.01'
),
'Liver' => array(
'average_FPKM' => '0.008',
'stddev_FPKM' => '0.01'
),
'Lung' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.01'
),
'Muscle' => array(
'average_FPKM' => '0.006',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.031',
'stddev_FPKM' => '0.02'
),
'Placenta' => array(
'average_FPKM' => '0.004',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.013',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSMUST00000180599'
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
(LPHN2)