| Source ID |
Type |
Tax ID |
Position |
| ODZ3 |
UCNEbase |
7955 |
14:37696576-37696829  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007P8_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_0007P8_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000177822' => null,
'ENSG00000218336' => 'teneurin transmembrane protein 3',
'ENSG00000221227' => 'microRNA 1305',
'ENSG00000225356' => null,
'ENSG00000248197' => 'long intergenic non-protein coding RNA 290',
'ENSG00000248266' => null,
'ENSG00000248694' => null,
'ENSG00000248770' => null,
'ENSG00000248816' => null,
'ENSG00000249460' => null,
'ENSG00000251336' => null,
'ENSG00000251433' => 'cyclin H pseudogene 1',
'ENSG00000251714' => 'RNA, 7SK small nuclear pseudogene 67',
'ENSG00000251742' => 'RNA, 7SK small nuclear pseudogene 13',
'ENSG00000252343' => 'RNA, U2 small nuclear 34, pseudogene',
'ENSMUSG00000031559' => 'RIKEN cDNA 4930555F03 gene',
'ENSMUSG00000031561' => 'teneurin transmembrane protein 3',
'ENSMUSG00000089548' => 'predicted gene, 25830',
'ENSMUSG00000100706' => 'predicted gene, 19744',
'ENSDARG00000005479' => 'teneurin transmembrane protein 3',
'ENSDARG00000083741' => '5S ribosomal RNA',
'ENSDARG00000085080' => '5S ribosomal RNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
),
'gene_name_arr' => array(
'ENSG00000177822' => 'MGC45800',
'ENSG00000218336' => 'TENM3',
'ENSG00000221227' => 'MIR1305',
'ENSG00000225356' => 'RP11-433O3.1',
'ENSG00000248197' => 'LINC00290',
'ENSG00000248266' => 'RP11-402C9.1',
'ENSG00000248694' => 'RP11-18D7.2',
'ENSG00000248770' => 'RP11-665C14.1',
'ENSG00000248816' => 'RP11-18D7.3',
'ENSG00000249460' => 'RP11-665C14.2',
'ENSG00000251336' => 'RP11-540E16.2',
'ENSG00000251433' => 'CCNHP1',
'ENSG00000251714' => 'RN7SKP67',
'ENSG00000251742' => 'RN7SKP13',
'ENSG00000252343' => 'RNU2-34P',
'ENSMUSG00000031559' => '4930555F03Rik',
'ENSMUSG00000031561' => 'Tenm3',
'ENSMUSG00000089548' => 'Gm25830',
'ENSMUSG00000100706' => 'RP23-61B8.2',
'ENSDARG00000005479' => 'tenm3',
'ENSDARG00000083741' => '5S_rRNA',
'ENSDARG00000085080' => '5S_rRNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
),
'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) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 24 => 'Breast',
(int) 30 => 'Colon',
(int) 36 => 'Heart',
(int) 47 => 'Kidney',
(int) 56 => 'Liver',
(int) 64 => 'Lung',
(int) 68 => 'Muscle',
(int) 75 => 'Ovary',
(int) 81 => 'Placenta',
(int) 87 => '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) 57,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000315302' => array(
'start' => '182141650',
'end' => '182144466',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-001'
),
'ENST00000505537' => array(
'start' => '182079629',
'end' => '182085084',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-004'
),
'ENST00000505873' => array(
'start' => '182142383',
'end' => '182143776',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-008'
),
'ENST00000507869' => array(
'start' => '181975156',
'end' => '182085136',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-003'
),
'ENST00000508968' => array(
'start' => '182143491',
'end' => '182145249',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-005'
),
'ENST00000509012' => array(
'start' => '181874438',
'end' => '182144195',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-002'
),
'ENST00000511052' => array(
'start' => '182143178',
'end' => '182143888',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-007'
),
'ENST00000513752' => array(
'start' => '182141186',
'end' => '182144500',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-006'
),
'ENST00000406950' => array(
'start' => '182600923',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-201'
),
'ENST00000502950' => array(
'start' => '182680324',
'end' => '182755353',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-003'
),
'ENST00000507737' => array(
'start' => '182680372',
'end' => '182681916',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TENM3-006'
),
'ENST00000510504' => array(
'start' => '182448999',
'end' => '182628875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-005'
),
'ENST00000511685' => array(
'start' => '182243429',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-001'
),
'ENST00000512480' => array(
'start' => '182144690',
'end' => '182346929',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-004'
),
'ENST00000513201' => array(
'start' => '182143987',
'end' => '182350316',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-002'
),
'ENST00000408300' => array(
'start' => '182169293',
'end' => '182169378',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR1305-201'
),
'ENST00000511599' => array(
'start' => '181522666',
'end' => '181523001',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-433O3.1-001'
),
'ENST00000512487' => array(
'start' => '181064089',
'end' => '181159149',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00290-001'
),
'ENST00000505389' => array(
'start' => '182144852',
'end' => '182190382',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-402C9.1-001'
),
'ENST00000513255' => array(
'start' => '182772565',
'end' => '182773931',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.2-001'
),
'ENST00000503847' => array(
'start' => '181237358',
'end' => '181237564',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-665C14.1-001'
),
'ENST00000509283' => array(
'start' => '182697902',
'end' => '182708042',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.3-001'
),
'ENST00000512547' => array(
'start' => '181261161',
'end' => '181265029',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-665C14.2-001'
),
'ENST00000510211' => array(
'start' => '181820019',
'end' => '181829973',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-540E16.2-001'
),
'ENST00000513311' => array(
'start' => '181905790',
'end' => '181906467',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'CCNHP1-001'
),
'ENST00000515905' => array(
'start' => '182631454',
'end' => '182631688',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP67-201'
),
'ENST00000515933' => array(
'start' => '181834865',
'end' => '181835108',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP13-201'
),
'ENST00000516534' => array(
'start' => '182548659',
'end' => '182548779',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU2-34P-201'
),
'ENSMUST00000033963' => array(
'start' => '49370913',
'end' => '49501984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-001'
),
'ENSMUST00000126285' => array(
'start' => '49485481',
'end' => '49521095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-003'
),
'ENSMUST00000143556' => array(
'start' => '49370886',
'end' => '49377214',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-002'
),
'ENSMUST00000163925' => array(
'start' => '49463323',
'end' => '49501891',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-201'
),
'ENSMUST00000033965' => array(
'start' => '48227705',
'end' => '48674641',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-201'
),
'ENSMUST00000110343' => array(
'start' => '48395436',
'end' => '48556039',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-004'
),
'ENSMUST00000110345' => array(
'start' => '48395436',
'end' => '48555846',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-003'
),
'ENSMUST00000110346' => array(
'start' => '48334753',
'end' => '48555693',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-002'
),
'ENSMUST00000129821' => array(
'start' => '48227682',
'end' => '48367363',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-005'
),
'ENSMUST00000145344' => array(
'start' => '48275915',
'end' => '48300099',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tenm3-006'
),
'ENSMUST00000190840' => array(
'start' => '48227682',
'end' => '48844026',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-001'
),
'ENSMUST00000158923' => array(
'start' => '48958350',
'end' => '48958481',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25830-201'
),
'ENSMUST00000185458' => array(
'start' => '48844041',
'end' => '48844514',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'RP23-61B8.2-005'
),
'ENSMUST00000186135' => array(
'start' => '48843797',
'end' => '48845109',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-004'
),
'ENSMUST00000187946' => array(
'start' => '48843665',
'end' => '48869016',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-002'
),
'ENSMUST00000188936' => array(
'start' => '48855417',
'end' => '48869901',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-001'
),
'ENSMUST00000189912' => array(
'start' => '48844103',
'end' => '48844608',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-006'
),
'ENSMUST00000190967' => array(
'start' => '48843722',
'end' => '48847486',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-003'
),
'ENSDART00000005592' => array(
'start' => '39960337',
'end' => '40139975',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-201'
),
'ENSDART00000084891' => array(
'start' => '39750404',
'end' => '39854301',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-005'
),
'ENSDART00000122700' => array(
'start' => '39845116',
'end' => '40140106',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-202'
),
'ENSDART00000132970' => array(
'start' => '40056922',
'end' => '40060019',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-002'
),
'ENSDART00000137676' => array(
'start' => '39915568',
'end' => '40142441',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-001'
),
'ENSDART00000144455' => array(
'start' => '40063087',
'end' => '40075922',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-003'
),
'ENSDART00000148701' => array(
'start' => '39750404',
'end' => '40139247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-004'
),
'ENSDART00000119141' => array(
'start' => '39876269',
'end' => '39876385',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.340-201'
),
'ENSDART00000120480' => array(
'start' => '39972361',
'end' => '39972478',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.989-201'
),
'ENSDART00000121133' => array(
'start' => '39736330',
'end' => '39736439',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'dre-mir-2197.1-201'
),
'ENSDART00000138659' => array(
'start' => '40038234',
'end' => '40040448',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'si:ch211-42a2.2-001'
)
),
'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_0007P8_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007P8_0001' => array(
'genes_in_region' => array(
'ENSG00000177822' => array(
[maximum depth reached]
),
'ENSG00000218336' => array(
[maximum depth reached]
),
'ENSG00000225356' => array(
[maximum depth reached]
),
'ENSG00000248197' => array(
[maximum depth reached]
),
'ENSG00000248816' => array(
[maximum depth reached]
),
'ENSG00000249460' => array(
[maximum depth reached]
),
'ENSG00000251336' => array(
[maximum depth reached]
),
'ENSG00000251433' => array(
[maximum depth reached]
),
'ENSG00000251714' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Lung',
(int) 1 => 'Adipose',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Bladder',
(int) 14 => 'Breast',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Testis',
(int) 20 => 'Adipose',
(int) 21 => 'Brain',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Brain',
(int) 25 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Ovary',
(int) 28 => 'Brain',
(int) 29 => 'Testis',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Muscle',
(int) 35 => 'Testis',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Testis',
(int) 40 => 'Adrenal',
(int) 41 => 'Heart',
(int) 42 => 'Kidney',
(int) 43 => 'Muscle',
(int) 44 => 'Testis',
(int) 45 => 'Brain',
(int) 46 => 'Liver',
(int) 47 => 'Testis'
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031561' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Bladder',
(int) 2 => 'Brain',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Breast',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Bladder',
(int) 27 => 'Brain',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Liver',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Placenta'
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
'ENSDARG00000005479' => array(
[maximum depth reached]
),
'ENSDARG00000085080' => array(
[maximum depth reached]
),
'ENSDARG00000085733' => array(
[maximum depth reached]
),
'ENSDARG00000093919' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Heart',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Liver',
(int) 6 => 'Brain',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000177822' => null,
'ENSG00000218336' => 'teneurin transmembrane protein 3',
'ENSG00000221227' => 'microRNA 1305',
'ENSG00000225356' => null,
'ENSG00000248197' => 'long intergenic non-protein coding RNA 290',
'ENSG00000248266' => null,
'ENSG00000248694' => null,
'ENSG00000248770' => null,
'ENSG00000248816' => null,
'ENSG00000249460' => null,
'ENSG00000251336' => null,
'ENSG00000251433' => 'cyclin H pseudogene 1',
'ENSG00000251714' => 'RNA, 7SK small nuclear pseudogene 67',
'ENSG00000251742' => 'RNA, 7SK small nuclear pseudogene 13',
'ENSG00000252343' => 'RNA, U2 small nuclear 34, pseudogene',
'ENSMUSG00000031559' => 'RIKEN cDNA 4930555F03 gene',
'ENSMUSG00000031561' => 'teneurin transmembrane protein 3',
'ENSMUSG00000089548' => 'predicted gene, 25830',
'ENSMUSG00000100706' => 'predicted gene, 19744',
'ENSDARG00000005479' => 'teneurin transmembrane protein 3',
'ENSDARG00000083741' => '5S ribosomal RNA',
'ENSDARG00000085080' => '5S ribosomal RNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
)
$gene_name_arr = array(
'ENSG00000177822' => 'MGC45800',
'ENSG00000218336' => 'TENM3',
'ENSG00000221227' => 'MIR1305',
'ENSG00000225356' => 'RP11-433O3.1',
'ENSG00000248197' => 'LINC00290',
'ENSG00000248266' => 'RP11-402C9.1',
'ENSG00000248694' => 'RP11-18D7.2',
'ENSG00000248770' => 'RP11-665C14.1',
'ENSG00000248816' => 'RP11-18D7.3',
'ENSG00000249460' => 'RP11-665C14.2',
'ENSG00000251336' => 'RP11-540E16.2',
'ENSG00000251433' => 'CCNHP1',
'ENSG00000251714' => 'RN7SKP67',
'ENSG00000251742' => 'RN7SKP13',
'ENSG00000252343' => 'RNU2-34P',
'ENSMUSG00000031559' => '4930555F03Rik',
'ENSMUSG00000031561' => 'Tenm3',
'ENSMUSG00000089548' => 'Gm25830',
'ENSMUSG00000100706' => 'RP23-61B8.2',
'ENSDARG00000005479' => 'tenm3',
'ENSDARG00000083741' => '5S_rRNA',
'ENSDARG00000085080' => '5S_rRNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0001',
'tax_id' => '9606',
'chromosome' => '4',
'seq_start' => '181121695',
'seq_end' => '182801148',
'region_length' => '1679453',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '48227661',
'seq_end' => '49864216',
'region_length' => '1636555',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0003',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '39548161',
'seq_end' => '40083147',
'region_length' => '534986',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0004',
'tax_id' => '7955',
'chromosome' => '14',
'seq_start' => '37696576',
'seq_end' => '37696829',
'region_length' => '253',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 24 => 'Breast',
(int) 30 => 'Colon',
(int) 36 => 'Heart',
(int) 47 => 'Kidney',
(int) 56 => 'Liver',
(int) 64 => 'Lung',
(int) 68 => 'Muscle',
(int) 75 => 'Ovary',
(int) 81 => 'Placenta',
(int) 87 => '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) 57
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000315302' => array(
'start' => '182141650',
'end' => '182144466',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-001'
),
'ENST00000505537' => array(
'start' => '182079629',
'end' => '182085084',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-004'
),
'ENST00000505873' => array(
'start' => '182142383',
'end' => '182143776',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-008'
),
'ENST00000507869' => array(
'start' => '181975156',
'end' => '182085136',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-003'
),
'ENST00000508968' => array(
'start' => '182143491',
'end' => '182145249',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-005'
),
'ENST00000509012' => array(
'start' => '181874438',
'end' => '182144195',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-002'
),
'ENST00000511052' => array(
'start' => '182143178',
'end' => '182143888',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-007'
),
'ENST00000513752' => array(
'start' => '182141186',
'end' => '182144500',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-006'
),
'ENST00000406950' => array(
'start' => '182600923',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-201'
),
'ENST00000502950' => array(
'start' => '182680324',
'end' => '182755353',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-003'
),
'ENST00000507737' => array(
'start' => '182680372',
'end' => '182681916',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TENM3-006'
),
'ENST00000510504' => array(
'start' => '182448999',
'end' => '182628875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-005'
),
'ENST00000511685' => array(
'start' => '182243429',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-001'
),
'ENST00000512480' => array(
'start' => '182144690',
'end' => '182346929',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-004'
),
'ENST00000513201' => array(
'start' => '182143987',
'end' => '182350316',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-002'
),
'ENST00000408300' => array(
'start' => '182169293',
'end' => '182169378',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR1305-201'
),
'ENST00000511599' => array(
'start' => '181522666',
'end' => '181523001',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-433O3.1-001'
),
'ENST00000512487' => array(
'start' => '181064089',
'end' => '181159149',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00290-001'
),
'ENST00000505389' => array(
'start' => '182144852',
'end' => '182190382',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-402C9.1-001'
),
'ENST00000513255' => array(
'start' => '182772565',
'end' => '182773931',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.2-001'
),
'ENST00000503847' => array(
'start' => '181237358',
'end' => '181237564',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-665C14.1-001'
),
'ENST00000509283' => array(
'start' => '182697902',
'end' => '182708042',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.3-001'
),
'ENST00000512547' => array(
'start' => '181261161',
'end' => '181265029',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-665C14.2-001'
),
'ENST00000510211' => array(
'start' => '181820019',
'end' => '181829973',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-540E16.2-001'
),
'ENST00000513311' => array(
'start' => '181905790',
'end' => '181906467',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'CCNHP1-001'
),
'ENST00000515905' => array(
'start' => '182631454',
'end' => '182631688',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP67-201'
),
'ENST00000515933' => array(
'start' => '181834865',
'end' => '181835108',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP13-201'
),
'ENST00000516534' => array(
'start' => '182548659',
'end' => '182548779',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU2-34P-201'
),
'ENSMUST00000033963' => array(
'start' => '49370913',
'end' => '49501984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-001'
),
'ENSMUST00000126285' => array(
'start' => '49485481',
'end' => '49521095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-003'
),
'ENSMUST00000143556' => array(
'start' => '49370886',
'end' => '49377214',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-002'
),
'ENSMUST00000163925' => array(
'start' => '49463323',
'end' => '49501891',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-201'
),
'ENSMUST00000033965' => array(
'start' => '48227705',
'end' => '48674641',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-201'
),
'ENSMUST00000110343' => array(
'start' => '48395436',
'end' => '48556039',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-004'
),
'ENSMUST00000110345' => array(
'start' => '48395436',
'end' => '48555846',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-003'
),
'ENSMUST00000110346' => array(
'start' => '48334753',
'end' => '48555693',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-002'
),
'ENSMUST00000129821' => array(
'start' => '48227682',
'end' => '48367363',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-005'
),
'ENSMUST00000145344' => array(
'start' => '48275915',
'end' => '48300099',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tenm3-006'
),
'ENSMUST00000190840' => array(
'start' => '48227682',
'end' => '48844026',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-001'
),
'ENSMUST00000158923' => array(
'start' => '48958350',
'end' => '48958481',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25830-201'
),
'ENSMUST00000185458' => array(
'start' => '48844041',
'end' => '48844514',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'RP23-61B8.2-005'
),
'ENSMUST00000186135' => array(
'start' => '48843797',
'end' => '48845109',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-004'
),
'ENSMUST00000187946' => array(
'start' => '48843665',
'end' => '48869016',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-002'
),
'ENSMUST00000188936' => array(
'start' => '48855417',
'end' => '48869901',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-001'
),
'ENSMUST00000189912' => array(
'start' => '48844103',
'end' => '48844608',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-006'
),
'ENSMUST00000190967' => array(
'start' => '48843722',
'end' => '48847486',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-003'
),
'ENSDART00000005592' => array(
'start' => '39960337',
'end' => '40139975',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-201'
),
'ENSDART00000084891' => array(
'start' => '39750404',
'end' => '39854301',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-005'
),
'ENSDART00000122700' => array(
'start' => '39845116',
'end' => '40140106',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-202'
),
'ENSDART00000132970' => array(
'start' => '40056922',
'end' => '40060019',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-002'
),
'ENSDART00000137676' => array(
'start' => '39915568',
'end' => '40142441',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-001'
),
'ENSDART00000144455' => array(
'start' => '40063087',
'end' => '40075922',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-003'
),
'ENSDART00000148701' => array(
'start' => '39750404',
'end' => '40139247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-004'
),
'ENSDART00000119141' => array(
'start' => '39876269',
'end' => '39876385',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.340-201'
),
'ENSDART00000120480' => array(
'start' => '39972361',
'end' => '39972478',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.989-201'
),
'ENSDART00000121133' => array(
'start' => '39736330',
'end' => '39736439',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'dre-mir-2197.1-201'
),
'ENSDART00000138659' => array(
'start' => '40038234',
'end' => '40040448',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'si:ch211-42a2.2-001'
)
)
$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_0007P8_0001' => array(
'genes_in_region' => array(
'ENSG00000177822' => array(
[maximum depth reached]
),
'ENSG00000218336' => array(
[maximum depth reached]
),
'ENSG00000225356' => array(
[maximum depth reached]
),
'ENSG00000248197' => array(
[maximum depth reached]
),
'ENSG00000248816' => array(
[maximum depth reached]
),
'ENSG00000249460' => array(
[maximum depth reached]
),
'ENSG00000251336' => array(
[maximum depth reached]
),
'ENSG00000251433' => array(
[maximum depth reached]
),
'ENSG00000251714' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Lung',
(int) 1 => 'Adipose',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Bladder',
(int) 14 => 'Breast',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Testis',
(int) 20 => 'Adipose',
(int) 21 => 'Brain',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Brain',
(int) 25 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Ovary',
(int) 28 => 'Brain',
(int) 29 => 'Testis',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Muscle',
(int) 35 => 'Testis',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Testis',
(int) 40 => 'Adrenal',
(int) 41 => 'Heart',
(int) 42 => 'Kidney',
(int) 43 => 'Muscle',
(int) 44 => 'Testis',
(int) 45 => 'Brain',
(int) 46 => 'Liver',
(int) 47 => 'Testis'
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031561' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Bladder',
(int) 2 => 'Brain',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Breast',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Bladder',
(int) 27 => 'Brain',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Liver',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Placenta'
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
'ENSDARG00000005479' => array(
[maximum depth reached]
),
'ENSDARG00000085080' => array(
[maximum depth reached]
),
'ENSDARG00000085733' => array(
[maximum depth reached]
),
'ENSDARG00000093919' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Heart',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Liver',
(int) 6 => 'Brain',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0004',
'tax_id' => '7955',
'chromosome' => '14',
'seq_start' => '37696576',
'seq_end' => '37696829',
'region_length' => '253',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
)
$gene_el = array(
'ENSDART00000138659' => array(
'Brain' => array(
'average_FPKM' => '0.482',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.520',
'stddev_FPKM' => '0.19'
),
'Kidney' => array(
'average_FPKM' => '0.413',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.401',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000093919'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.482',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.520',
'stddev_FPKM' => '0.19'
),
'Kidney' => array(
'average_FPKM' => '0.413',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.401',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000138659'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007P8_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000177822' => null,
'ENSG00000218336' => 'teneurin transmembrane protein 3',
'ENSG00000221227' => 'microRNA 1305',
'ENSG00000225356' => null,
'ENSG00000248197' => 'long intergenic non-protein coding RNA 290',
'ENSG00000248266' => null,
'ENSG00000248694' => null,
'ENSG00000248770' => null,
'ENSG00000248816' => null,
'ENSG00000249460' => null,
'ENSG00000251336' => null,
'ENSG00000251433' => 'cyclin H pseudogene 1',
'ENSG00000251714' => 'RNA, 7SK small nuclear pseudogene 67',
'ENSG00000251742' => 'RNA, 7SK small nuclear pseudogene 13',
'ENSG00000252343' => 'RNA, U2 small nuclear 34, pseudogene',
'ENSMUSG00000031559' => 'RIKEN cDNA 4930555F03 gene',
'ENSMUSG00000031561' => 'teneurin transmembrane protein 3',
'ENSMUSG00000089548' => 'predicted gene, 25830',
'ENSMUSG00000100706' => 'predicted gene, 19744',
'ENSDARG00000005479' => 'teneurin transmembrane protein 3',
'ENSDARG00000083741' => '5S ribosomal RNA',
'ENSDARG00000085080' => '5S ribosomal RNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
),
'gene_name_arr' => array(
'ENSG00000177822' => 'MGC45800',
'ENSG00000218336' => 'TENM3',
'ENSG00000221227' => 'MIR1305',
'ENSG00000225356' => 'RP11-433O3.1',
'ENSG00000248197' => 'LINC00290',
'ENSG00000248266' => 'RP11-402C9.1',
'ENSG00000248694' => 'RP11-18D7.2',
'ENSG00000248770' => 'RP11-665C14.1',
'ENSG00000248816' => 'RP11-18D7.3',
'ENSG00000249460' => 'RP11-665C14.2',
'ENSG00000251336' => 'RP11-540E16.2',
'ENSG00000251433' => 'CCNHP1',
'ENSG00000251714' => 'RN7SKP67',
'ENSG00000251742' => 'RN7SKP13',
'ENSG00000252343' => 'RNU2-34P',
'ENSMUSG00000031559' => '4930555F03Rik',
'ENSMUSG00000031561' => 'Tenm3',
'ENSMUSG00000089548' => 'Gm25830',
'ENSMUSG00000100706' => 'RP23-61B8.2',
'ENSDARG00000005479' => 'tenm3',
'ENSDARG00000083741' => '5S_rRNA',
'ENSDARG00000085080' => '5S_rRNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
),
'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) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 24 => 'Breast',
(int) 30 => 'Colon',
(int) 36 => 'Heart',
(int) 47 => 'Kidney',
(int) 56 => 'Liver',
(int) 64 => 'Lung',
(int) 68 => 'Muscle',
(int) 75 => 'Ovary',
(int) 81 => 'Placenta',
(int) 87 => '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) 57,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000315302' => array(
'start' => '182141650',
'end' => '182144466',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-001'
),
'ENST00000505537' => array(
'start' => '182079629',
'end' => '182085084',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-004'
),
'ENST00000505873' => array(
'start' => '182142383',
'end' => '182143776',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-008'
),
'ENST00000507869' => array(
'start' => '181975156',
'end' => '182085136',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-003'
),
'ENST00000508968' => array(
'start' => '182143491',
'end' => '182145249',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-005'
),
'ENST00000509012' => array(
'start' => '181874438',
'end' => '182144195',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-002'
),
'ENST00000511052' => array(
'start' => '182143178',
'end' => '182143888',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-007'
),
'ENST00000513752' => array(
'start' => '182141186',
'end' => '182144500',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-006'
),
'ENST00000406950' => array(
'start' => '182600923',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-201'
),
'ENST00000502950' => array(
'start' => '182680324',
'end' => '182755353',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-003'
),
'ENST00000507737' => array(
'start' => '182680372',
'end' => '182681916',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TENM3-006'
),
'ENST00000510504' => array(
'start' => '182448999',
'end' => '182628875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-005'
),
'ENST00000511685' => array(
'start' => '182243429',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-001'
),
'ENST00000512480' => array(
'start' => '182144690',
'end' => '182346929',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-004'
),
'ENST00000513201' => array(
'start' => '182143987',
'end' => '182350316',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-002'
),
'ENST00000408300' => array(
'start' => '182169293',
'end' => '182169378',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR1305-201'
),
'ENST00000511599' => array(
'start' => '181522666',
'end' => '181523001',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-433O3.1-001'
),
'ENST00000512487' => array(
'start' => '181064089',
'end' => '181159149',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00290-001'
),
'ENST00000505389' => array(
'start' => '182144852',
'end' => '182190382',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-402C9.1-001'
),
'ENST00000513255' => array(
'start' => '182772565',
'end' => '182773931',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.2-001'
),
'ENST00000503847' => array(
'start' => '181237358',
'end' => '181237564',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-665C14.1-001'
),
'ENST00000509283' => array(
'start' => '182697902',
'end' => '182708042',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.3-001'
),
'ENST00000512547' => array(
'start' => '181261161',
'end' => '181265029',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-665C14.2-001'
),
'ENST00000510211' => array(
'start' => '181820019',
'end' => '181829973',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-540E16.2-001'
),
'ENST00000513311' => array(
'start' => '181905790',
'end' => '181906467',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'CCNHP1-001'
),
'ENST00000515905' => array(
'start' => '182631454',
'end' => '182631688',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP67-201'
),
'ENST00000515933' => array(
'start' => '181834865',
'end' => '181835108',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP13-201'
),
'ENST00000516534' => array(
'start' => '182548659',
'end' => '182548779',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU2-34P-201'
),
'ENSMUST00000033963' => array(
'start' => '49370913',
'end' => '49501984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-001'
),
'ENSMUST00000126285' => array(
'start' => '49485481',
'end' => '49521095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-003'
),
'ENSMUST00000143556' => array(
'start' => '49370886',
'end' => '49377214',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-002'
),
'ENSMUST00000163925' => array(
'start' => '49463323',
'end' => '49501891',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-201'
),
'ENSMUST00000033965' => array(
'start' => '48227705',
'end' => '48674641',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-201'
),
'ENSMUST00000110343' => array(
'start' => '48395436',
'end' => '48556039',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-004'
),
'ENSMUST00000110345' => array(
'start' => '48395436',
'end' => '48555846',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-003'
),
'ENSMUST00000110346' => array(
'start' => '48334753',
'end' => '48555693',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-002'
),
'ENSMUST00000129821' => array(
'start' => '48227682',
'end' => '48367363',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-005'
),
'ENSMUST00000145344' => array(
'start' => '48275915',
'end' => '48300099',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tenm3-006'
),
'ENSMUST00000190840' => array(
'start' => '48227682',
'end' => '48844026',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-001'
),
'ENSMUST00000158923' => array(
'start' => '48958350',
'end' => '48958481',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25830-201'
),
'ENSMUST00000185458' => array(
'start' => '48844041',
'end' => '48844514',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'RP23-61B8.2-005'
),
'ENSMUST00000186135' => array(
'start' => '48843797',
'end' => '48845109',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-004'
),
'ENSMUST00000187946' => array(
'start' => '48843665',
'end' => '48869016',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-002'
),
'ENSMUST00000188936' => array(
'start' => '48855417',
'end' => '48869901',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-001'
),
'ENSMUST00000189912' => array(
'start' => '48844103',
'end' => '48844608',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-006'
),
'ENSMUST00000190967' => array(
'start' => '48843722',
'end' => '48847486',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-003'
),
'ENSDART00000005592' => array(
'start' => '39960337',
'end' => '40139975',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-201'
),
'ENSDART00000084891' => array(
'start' => '39750404',
'end' => '39854301',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-005'
),
'ENSDART00000122700' => array(
'start' => '39845116',
'end' => '40140106',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-202'
),
'ENSDART00000132970' => array(
'start' => '40056922',
'end' => '40060019',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-002'
),
'ENSDART00000137676' => array(
'start' => '39915568',
'end' => '40142441',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-001'
),
'ENSDART00000144455' => array(
'start' => '40063087',
'end' => '40075922',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-003'
),
'ENSDART00000148701' => array(
'start' => '39750404',
'end' => '40139247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-004'
),
'ENSDART00000119141' => array(
'start' => '39876269',
'end' => '39876385',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.340-201'
),
'ENSDART00000120480' => array(
'start' => '39972361',
'end' => '39972478',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.989-201'
),
'ENSDART00000121133' => array(
'start' => '39736330',
'end' => '39736439',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'dre-mir-2197.1-201'
),
'ENSDART00000138659' => array(
'start' => '40038234',
'end' => '40040448',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'si:ch211-42a2.2-001'
)
),
'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_0007P8_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007P8_0001' => array(
'genes_in_region' => array(
'ENSG00000177822' => array(
[maximum depth reached]
),
'ENSG00000218336' => array(
[maximum depth reached]
),
'ENSG00000225356' => array(
[maximum depth reached]
),
'ENSG00000248197' => array(
[maximum depth reached]
),
'ENSG00000248816' => array(
[maximum depth reached]
),
'ENSG00000249460' => array(
[maximum depth reached]
),
'ENSG00000251336' => array(
[maximum depth reached]
),
'ENSG00000251433' => array(
[maximum depth reached]
),
'ENSG00000251714' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Lung',
(int) 1 => 'Adipose',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Bladder',
(int) 14 => 'Breast',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Testis',
(int) 20 => 'Adipose',
(int) 21 => 'Brain',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Brain',
(int) 25 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Ovary',
(int) 28 => 'Brain',
(int) 29 => 'Testis',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Muscle',
(int) 35 => 'Testis',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Testis',
(int) 40 => 'Adrenal',
(int) 41 => 'Heart',
(int) 42 => 'Kidney',
(int) 43 => 'Muscle',
(int) 44 => 'Testis',
(int) 45 => 'Brain',
(int) 46 => 'Liver',
(int) 47 => 'Testis'
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031561' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Bladder',
(int) 2 => 'Brain',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Breast',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Bladder',
(int) 27 => 'Brain',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Liver',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Placenta'
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
'ENSDARG00000005479' => array(
[maximum depth reached]
),
'ENSDARG00000085080' => array(
[maximum depth reached]
),
'ENSDARG00000085733' => array(
[maximum depth reached]
),
'ENSDARG00000093919' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Heart',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Liver',
(int) 6 => 'Brain',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000177822' => null,
'ENSG00000218336' => 'teneurin transmembrane protein 3',
'ENSG00000221227' => 'microRNA 1305',
'ENSG00000225356' => null,
'ENSG00000248197' => 'long intergenic non-protein coding RNA 290',
'ENSG00000248266' => null,
'ENSG00000248694' => null,
'ENSG00000248770' => null,
'ENSG00000248816' => null,
'ENSG00000249460' => null,
'ENSG00000251336' => null,
'ENSG00000251433' => 'cyclin H pseudogene 1',
'ENSG00000251714' => 'RNA, 7SK small nuclear pseudogene 67',
'ENSG00000251742' => 'RNA, 7SK small nuclear pseudogene 13',
'ENSG00000252343' => 'RNA, U2 small nuclear 34, pseudogene',
'ENSMUSG00000031559' => 'RIKEN cDNA 4930555F03 gene',
'ENSMUSG00000031561' => 'teneurin transmembrane protein 3',
'ENSMUSG00000089548' => 'predicted gene, 25830',
'ENSMUSG00000100706' => 'predicted gene, 19744',
'ENSDARG00000005479' => 'teneurin transmembrane protein 3',
'ENSDARG00000083741' => '5S ribosomal RNA',
'ENSDARG00000085080' => '5S ribosomal RNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
)
$gene_name_arr = array(
'ENSG00000177822' => 'MGC45800',
'ENSG00000218336' => 'TENM3',
'ENSG00000221227' => 'MIR1305',
'ENSG00000225356' => 'RP11-433O3.1',
'ENSG00000248197' => 'LINC00290',
'ENSG00000248266' => 'RP11-402C9.1',
'ENSG00000248694' => 'RP11-18D7.2',
'ENSG00000248770' => 'RP11-665C14.1',
'ENSG00000248816' => 'RP11-18D7.3',
'ENSG00000249460' => 'RP11-665C14.2',
'ENSG00000251336' => 'RP11-540E16.2',
'ENSG00000251433' => 'CCNHP1',
'ENSG00000251714' => 'RN7SKP67',
'ENSG00000251742' => 'RN7SKP13',
'ENSG00000252343' => 'RNU2-34P',
'ENSMUSG00000031559' => '4930555F03Rik',
'ENSMUSG00000031561' => 'Tenm3',
'ENSMUSG00000089548' => 'Gm25830',
'ENSMUSG00000100706' => 'RP23-61B8.2',
'ENSDARG00000005479' => 'tenm3',
'ENSDARG00000083741' => '5S_rRNA',
'ENSDARG00000085080' => '5S_rRNA',
'ENSDARG00000085733' => 'dre-mir-2197',
'ENSDARG00000093919' => 'si:ch211-42a2.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0001',
'tax_id' => '9606',
'chromosome' => '4',
'seq_start' => '181121695',
'seq_end' => '182801148',
'region_length' => '1679453',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '48227661',
'seq_end' => '49864216',
'region_length' => '1636555',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0003',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '39548161',
'seq_end' => '40083147',
'region_length' => '534986',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0004',
'tax_id' => '7955',
'chromosome' => '14',
'seq_start' => '37696576',
'seq_end' => '37696829',
'region_length' => '253',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 10 => 'Brain',
(int) 24 => 'Breast',
(int) 30 => 'Colon',
(int) 36 => 'Heart',
(int) 47 => 'Kidney',
(int) 56 => 'Liver',
(int) 64 => 'Lung',
(int) 68 => 'Muscle',
(int) 75 => 'Ovary',
(int) 81 => 'Placenta',
(int) 87 => '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) 57
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000315302' => array(
'start' => '182141650',
'end' => '182144466',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-001'
),
'ENST00000505537' => array(
'start' => '182079629',
'end' => '182085084',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-004'
),
'ENST00000505873' => array(
'start' => '182142383',
'end' => '182143776',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-008'
),
'ENST00000507869' => array(
'start' => '181975156',
'end' => '182085136',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-003'
),
'ENST00000508968' => array(
'start' => '182143491',
'end' => '182145249',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-005'
),
'ENST00000509012' => array(
'start' => '181874438',
'end' => '182144195',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-002'
),
'ENST00000511052' => array(
'start' => '182143178',
'end' => '182143888',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-007'
),
'ENST00000513752' => array(
'start' => '182141186',
'end' => '182144500',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MGC45800-006'
),
'ENST00000406950' => array(
'start' => '182600923',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-201'
),
'ENST00000502950' => array(
'start' => '182680324',
'end' => '182755353',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-003'
),
'ENST00000507737' => array(
'start' => '182680372',
'end' => '182681916',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TENM3-006'
),
'ENST00000510504' => array(
'start' => '182448999',
'end' => '182628875',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-005'
),
'ENST00000511685' => array(
'start' => '182243429',
'end' => '182803024',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-001'
),
'ENST00000512480' => array(
'start' => '182144690',
'end' => '182346929',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TENM3-004'
),
'ENST00000513201' => array(
'start' => '182143987',
'end' => '182350316',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'TENM3-002'
),
'ENST00000408300' => array(
'start' => '182169293',
'end' => '182169378',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR1305-201'
),
'ENST00000511599' => array(
'start' => '181522666',
'end' => '181523001',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-433O3.1-001'
),
'ENST00000512487' => array(
'start' => '181064089',
'end' => '181159149',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00290-001'
),
'ENST00000505389' => array(
'start' => '182144852',
'end' => '182190382',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-402C9.1-001'
),
'ENST00000513255' => array(
'start' => '182772565',
'end' => '182773931',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.2-001'
),
'ENST00000503847' => array(
'start' => '181237358',
'end' => '181237564',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-665C14.1-001'
),
'ENST00000509283' => array(
'start' => '182697902',
'end' => '182708042',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-18D7.3-001'
),
'ENST00000512547' => array(
'start' => '181261161',
'end' => '181265029',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-665C14.2-001'
),
'ENST00000510211' => array(
'start' => '181820019',
'end' => '181829973',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-540E16.2-001'
),
'ENST00000513311' => array(
'start' => '181905790',
'end' => '181906467',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'CCNHP1-001'
),
'ENST00000515905' => array(
'start' => '182631454',
'end' => '182631688',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP67-201'
),
'ENST00000515933' => array(
'start' => '181834865',
'end' => '181835108',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'RN7SKP13-201'
),
'ENST00000516534' => array(
'start' => '182548659',
'end' => '182548779',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU2-34P-201'
),
'ENSMUST00000033963' => array(
'start' => '49370913',
'end' => '49501984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-001'
),
'ENSMUST00000126285' => array(
'start' => '49485481',
'end' => '49521095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-003'
),
'ENSMUST00000143556' => array(
'start' => '49370886',
'end' => '49377214',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555F03Rik-002'
),
'ENSMUST00000163925' => array(
'start' => '49463323',
'end' => '49501891',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '4930555F03Rik-201'
),
'ENSMUST00000033965' => array(
'start' => '48227705',
'end' => '48674641',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-201'
),
'ENSMUST00000110343' => array(
'start' => '48395436',
'end' => '48556039',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-004'
),
'ENSMUST00000110345' => array(
'start' => '48395436',
'end' => '48555846',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-003'
),
'ENSMUST00000110346' => array(
'start' => '48334753',
'end' => '48555693',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-002'
),
'ENSMUST00000129821' => array(
'start' => '48227682',
'end' => '48367363',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-005'
),
'ENSMUST00000145344' => array(
'start' => '48275915',
'end' => '48300099',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tenm3-006'
),
'ENSMUST00000190840' => array(
'start' => '48227682',
'end' => '48844026',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tenm3-001'
),
'ENSMUST00000158923' => array(
'start' => '48958350',
'end' => '48958481',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25830-201'
),
'ENSMUST00000185458' => array(
'start' => '48844041',
'end' => '48844514',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'RP23-61B8.2-005'
),
'ENSMUST00000186135' => array(
'start' => '48843797',
'end' => '48845109',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-004'
),
'ENSMUST00000187946' => array(
'start' => '48843665',
'end' => '48869016',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-002'
),
'ENSMUST00000188936' => array(
'start' => '48855417',
'end' => '48869901',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-001'
),
'ENSMUST00000189912' => array(
'start' => '48844103',
'end' => '48844608',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP23-61B8.2-006'
),
'ENSMUST00000190967' => array(
'start' => '48843722',
'end' => '48847486',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP23-61B8.2-003'
),
'ENSDART00000005592' => array(
'start' => '39960337',
'end' => '40139975',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-201'
),
'ENSDART00000084891' => array(
'start' => '39750404',
'end' => '39854301',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-005'
),
'ENSDART00000122700' => array(
'start' => '39845116',
'end' => '40140106',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-202'
),
'ENSDART00000132970' => array(
'start' => '40056922',
'end' => '40060019',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-002'
),
'ENSDART00000137676' => array(
'start' => '39915568',
'end' => '40142441',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-001'
),
'ENSDART00000144455' => array(
'start' => '40063087',
'end' => '40075922',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'tenm3-003'
),
'ENSDART00000148701' => array(
'start' => '39750404',
'end' => '40139247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tenm3-004'
),
'ENSDART00000119141' => array(
'start' => '39876269',
'end' => '39876385',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.340-201'
),
'ENSDART00000120480' => array(
'start' => '39972361',
'end' => '39972478',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.989-201'
),
'ENSDART00000121133' => array(
'start' => '39736330',
'end' => '39736439',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'dre-mir-2197.1-201'
),
'ENSDART00000138659' => array(
'start' => '40038234',
'end' => '40040448',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'si:ch211-42a2.2-001'
)
)
$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_0007P8_0001' => array(
'genes_in_region' => array(
'ENSG00000177822' => array(
[maximum depth reached]
),
'ENSG00000218336' => array(
[maximum depth reached]
),
'ENSG00000225356' => array(
[maximum depth reached]
),
'ENSG00000248197' => array(
[maximum depth reached]
),
'ENSG00000248816' => array(
[maximum depth reached]
),
'ENSG00000249460' => array(
[maximum depth reached]
),
'ENSG00000251336' => array(
[maximum depth reached]
),
'ENSG00000251433' => array(
[maximum depth reached]
),
'ENSG00000251714' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Lung',
(int) 1 => 'Adipose',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Bladder',
(int) 14 => 'Breast',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Testis',
(int) 20 => 'Adipose',
(int) 21 => 'Brain',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Brain',
(int) 25 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Ovary',
(int) 28 => 'Brain',
(int) 29 => 'Testis',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Muscle',
(int) 35 => 'Testis',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Testis',
(int) 40 => 'Adrenal',
(int) 41 => 'Heart',
(int) 42 => 'Kidney',
(int) 43 => 'Muscle',
(int) 44 => 'Testis',
(int) 45 => 'Brain',
(int) 46 => 'Liver',
(int) 47 => 'Testis'
)
),
'CIL_0007P8_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031561' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Bladder',
(int) 2 => 'Brain',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Adipose',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Breast',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Bladder',
(int) 27 => 'Brain',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Liver',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Placenta'
)
),
'CIL_0007P8_0003' => array(
'genes_in_region' => array(
'ENSDARG00000005479' => array(
[maximum depth reached]
),
'ENSDARG00000085080' => array(
[maximum depth reached]
),
'ENSDARG00000085733' => array(
[maximum depth reached]
),
'ENSDARG00000093919' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Heart',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Liver',
(int) 6 => 'Brain',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P8_0004',
'tax_id' => '7955',
'chromosome' => '14',
'seq_start' => '37696576',
'seq_end' => '37696829',
'region_length' => '253',
'region_type' => 'UCNEbase',
'el_id' => 'ODZ3'
)
)
$gene_el = array(
'ENSDART00000138659' => array(
'Brain' => array(
'average_FPKM' => '0.482',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.520',
'stddev_FPKM' => '0.19'
),
'Kidney' => array(
'average_FPKM' => '0.413',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.401',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000093919'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.482',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.520',
'stddev_FPKM' => '0.19'
),
'Kidney' => array(
'average_FPKM' => '0.413',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.401',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000138659'
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
(MGC45800)