| Source ID |
Type |
Tax ID |
Position |
| NR4A2 |
UCNEbase |
7955 |
Zv9_NA211:6434-6669  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007NB_0005 [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_0007NB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000115159' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSG00000153234' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSG00000226383' => null,
'ENSG00000235548' => null,
'ENSG00000238069' => 'ribosomal protein, large, P0 pseudogene 7',
'ENSG00000263848' => null,
'ENSMUSG00000026826' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSMUSG00000026827' => 'glycerol phosphate dehydrogenase 2, mitochondrial',
'ENSMUSG00000054181' => 'RIKEN cDNA A930012O16 gene',
'ENSMUSG00000080812' => 'predicted gene 13526',
'ENSMUSG00000081642' => 'predicted gene 13532',
'ENSMUSG00000082004' => 'predicted gene 13519',
'ENSMUSG00000082578' => 'predicted gene 13527',
'ENSMUSG00000084292' => 'predicted gene 13535',
'ENSMUSG00000084294' => 'predicted gene 13533',
'ENSMUSG00000084338' => 'predicted gene 13531',
'ENSMUSG00000084938' => 'expressed sequence BB557941',
'ENSMUSG00000086396' => 'RIKEN cDNA 4930555B11 gene',
'ENSMUSG00000087964' => 'predicted gene, 25388',
'ENSMUSG00000098437' => 'microRNA 195b',
'ENSDARG00000044532' => 'nuclear receptor subfamily 4, group A, member 2b',
'ENSDARG00000062430' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSDARG00000087395' => '5S ribosomal RNA',
'ENSDARG00000017007' => 'nuclear receptor subfamily 4, group A, member 2a',
'ENSDARG00000083000' => null,
'ENSDARG00000083114' => null
),
'gene_name_arr' => array(
'ENSG00000115159' => 'GPD2',
'ENSG00000153234' => 'NR4A2',
'ENSG00000226383' => 'AC093375.1',
'ENSG00000235548' => 'AC073551.1',
'ENSG00000238069' => 'RPLP0P7',
'ENSG00000263848' => 'AC108057.1',
'ENSMUSG00000026826' => 'Nr4a2',
'ENSMUSG00000026827' => 'Gpd2',
'ENSMUSG00000054181' => 'A930012O16Rik',
'ENSMUSG00000080812' => 'Gm13526',
'ENSMUSG00000081642' => 'Gm13532',
'ENSMUSG00000082004' => 'Gm13519',
'ENSMUSG00000082578' => 'Gm13527',
'ENSMUSG00000084292' => 'Gm13535',
'ENSMUSG00000084294' => 'Gm13533',
'ENSMUSG00000084338' => 'Gm13531',
'ENSMUSG00000084938' => 'BB557941',
'ENSMUSG00000086396' => '4930555B11Rik',
'ENSMUSG00000087964' => 'Gm25388',
'ENSMUSG00000098437' => 'Mir195b',
'ENSDARG00000044532' => 'nr4a2b',
'ENSDARG00000062430' => 'gpd2',
'ENSDARG00000087395' => '5S_rRNA',
'ENSDARG00000017007' => 'nr4a2a',
'ENSDARG00000083000' => 'CU207353.1',
'ENSDARG00000083114' => 'CU207353.2'
),
'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]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 39 => 'Brain',
(int) 56 => 'Breast',
(int) 71 => 'Colon',
(int) 84 => 'Heart',
(int) 102 => 'Kidney',
(int) 117 => 'Liver',
(int) 135 => 'Lung',
(int) 147 => 'Muscle',
(int) 164 => 'Ovary',
(int) 180 => 'Placenta',
(int) 200 => '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) 65,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000310454' => array(
'start' => '156435441',
'end' => '156586403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-001'
),
'ENST00000409125' => array(
'start' => '156473572',
'end' => '156583228',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-201'
),
'ENST00000409674' => array(
'start' => '156473572',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-003'
),
'ENST00000409861' => array(
'start' => '156473572',
'end' => '156613735',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-012'
),
'ENST00000415049' => array(
'start' => '156435290',
'end' => '156510849',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-008'
),
'ENST00000416888' => array(
'start' => '156473572',
'end' => '156501844',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-005'
),
'ENST00000430992' => array(
'start' => '156473592',
'end' => '156510834',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-006'
),
'ENST00000438166' => array(
'start' => '156436389',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-002'
),
'ENST00000464846' => array(
'start' => '156571172',
'end' => '156583009',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'GPD2-011'
),
'ENST00000492005' => array(
'start' => '156579083',
'end' => '156583048',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-009'
),
'ENST00000495851' => array(
'start' => '156436427',
'end' => '156501881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-007'
),
'ENST00000496190' => array(
'start' => '156579686',
'end' => '156583273',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-010'
),
'ENST00000540309' => array(
'start' => '156436485',
'end' => '156583404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-202'
),
'ENST00000339562' => array(
'start' => '156324432',
'end' => '156332716',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-001'
),
'ENST00000406048' => array(
'start' => '156327904',
'end' => '156330121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-007'
),
'ENST00000409108' => array(
'start' => '156325744',
'end' => '156330707',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-009'
),
'ENST00000409572' => array(
'start' => '156325098',
'end' => '156342348',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-010'
),
'ENST00000417764' => array(
'start' => '156325100',
'end' => '156330788',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-011'
),
'ENST00000417972' => array(
'start' => '156325100',
'end' => '156331965',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-006'
),
'ENST00000421709' => array(
'start' => '156329678',
'end' => '156332720',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-004'
),
'ENST00000424077' => array(
'start' => '156329413',
'end' => '156332713',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-005'
),
'ENST00000426264' => array(
'start' => '156325082',
'end' => '156332714',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-003'
),
'ENST00000429376' => array(
'start' => '156325744',
'end' => '156330721',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-008'
),
'ENST00000428651' => array(
'start' => '156020535',
'end' => '156024576',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-002'
),
'ENST00000448255' => array(
'start' => '156011617',
'end' => '156024613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-001'
),
'ENST00000450741' => array(
'start' => '156033247',
'end' => '156034080',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC073551.1-001'
),
'ENST00000416050' => array(
'start' => '156777706',
'end' => '156778372',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPLP0P7-001'
),
'ENST00000581968' => array(
'start' => '157015172',
'end' => '157015257',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC108057.1-201'
),
'ENSMUST00000028166' => array(
'start' => '57106830',
'end' => '57115038',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-003'
),
'ENSMUST00000112627' => array(
'start' => '57107499',
'end' => '57113072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-006'
),
'ENSMUST00000112629' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-001'
),
'ENSMUST00000128776' => array(
'start' => '57112990',
'end' => '57114373',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-004'
),
'ENSMUST00000140165' => array(
'start' => '57112003',
'end' => '57115038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-005'
),
'ENSMUST00000183542' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Nr4a2-002'
),
'ENSMUST00000028167' => array(
'start' => '57238382',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-201'
),
'ENSMUST00000112618' => array(
'start' => '57238297',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-001'
),
'ENSMUST00000124689' => array(
'start' => '57265135',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-004'
),
'ENSMUST00000141536' => array(
'start' => '57237635',
'end' => '57367853',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-002'
),
'ENSMUST00000148991' => array(
'start' => '57244362',
'end' => '57306976',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-003'
),
'ENSMUST00000154612' => array(
'start' => '57267377',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-005'
),
'ENSMUST00000169687' => array(
'start' => '57237678',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-202'
),
'ENSMUST00000146529' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-002'
),
'ENSMUST00000156418' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-001'
),
'ENSMUST00000117970' => array(
'start' => '57214054',
'end' => '57214242',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13526-001'
),
'ENSMUST00000120373' => array(
'start' => '57628989',
'end' => '57629228',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13532-001'
),
'ENSMUST00000120500' => array(
'start' => '56853733',
'end' => '56854004',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13519-001'
),
'ENSMUST00000117926' => array(
'start' => '57079748',
'end' => '57080438',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13527-001'
),
'ENSMUST00000118714' => array(
'start' => '57272564',
'end' => '57275686',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13535-001'
),
'ENSMUST00000121104' => array(
'start' => '57643648',
'end' => '57643824',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13533-001'
),
'ENSMUST00000121893' => array(
'start' => '57425167',
'end' => '57425709',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13531-001'
),
'ENSMUST00000126549' => array(
'start' => '57127479',
'end' => '57181754',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'BB557941-001'
),
'ENSMUST00000123210' => array(
'start' => '57181831',
'end' => '57188257',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555B11Rik-001'
),
'ENSMUST00000157339' => array(
'start' => '57653672',
'end' => '57653822',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25388-201'
),
'ENSMUST00000184814' => array(
'start' => '56785811',
'end' => '56785907',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir195b-201'
),
'ENSDART00000065385' => array(
'start' => '12373999',
'end' => '12378470',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2b-001'
),
'ENSDART00000090266' => array(
'start' => '12291586',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-201'
),
'ENSDART00000127495' => array(
'start' => '12292843',
'end' => '12367997',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-202'
),
'ENSDART00000140453' => array(
'start' => '12366415',
'end' => '12371369',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'gpd2-002'
),
'ENSDART00000144028' => array(
'start' => '12292407',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-001'
),
'ENSDART00000121517' => array(
'start' => '12326135',
'end' => '12326249',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1601-201'
),
'ENSDART00000109954' => array(
'start' => '5047097',
'end' => '5051258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-201'
),
'ENSDART00000149268' => array(
'start' => '5048052',
'end' => '5051396',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-001'
),
'ENSDART00000149697' => array(
'start' => '5049105',
'end' => '5050106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'nr4a2a-002'
),
'ENSDART00000116451' => array(
'start' => '5202864',
'end' => '5202948',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.1-201'
),
'ENSDART00000115974' => array(
'start' => '5202694',
'end' => '5202780',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.2-201'
)
),
'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_0007NB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007NB_0001' => array(
'genes_in_region' => array(
'ENSG00000115159' => array(
[maximum depth reached]
),
'ENSG00000153234' => array(
[maximum depth reached]
),
'ENSG00000226383' => array(
[maximum depth reached]
),
'ENSG00000235548' => array(
[maximum depth reached]
),
'ENSG00000238069' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Bladder',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Breast',
(int) 9 => 'Kidney',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Liver',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Kidney',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Heart',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Bladder',
(int) 34 => 'Brain',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Lung',
(int) 39 => 'Muscle',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Placenta',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Adipose',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Colon',
(int) 52 => 'Muscle',
(int) 53 => 'Placenta',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Colon',
(int) 58 => 'Heart',
(int) 59 => 'Kidney',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Adipose',
(int) 65 => 'Adrenal',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Bladder',
(int) 74 => 'Brain',
(int) 75 => 'Breast',
(int) 76 => 'Colon',
(int) 77 => 'Heart',
(int) 78 => 'Liver',
(int) 79 => 'Lung',
(int) 80 => 'Ovary',
(int) 81 => 'Testis',
(int) 82 => 'Adrenal',
(int) 83 => 'Lung'
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026826' => array(
[maximum depth reached]
),
'ENSMUSG00000026827' => array(
[maximum depth reached]
),
'ENSMUSG00000081642' => array(
[maximum depth reached]
),
'ENSMUSG00000082004' => array(
[maximum depth reached]
),
'ENSMUSG00000084292' => array(
[maximum depth reached]
),
'ENSMUSG00000084338' => array(
[maximum depth reached]
),
'ENSMUSG00000084938' => array(
[maximum depth reached]
),
'ENSMUSG00000086396' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Bladder',
(int) 3 => 'Brain',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Adipose',
(int) 12 => 'Adrenal',
(int) 13 => 'Breast',
(int) 14 => 'Colon',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Placenta',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Muscle',
(int) 42 => 'Testis',
(int) 43 => 'Adrenal',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Lung',
(int) 47 => 'Muscle',
(int) 48 => 'Ovary',
(int) 49 => 'Adipose',
(int) 50 => 'Adrenal',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Adrenal',
(int) 63 => 'Lung',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Liver',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Adipose',
(int) 74 => 'Bladder',
(int) 75 => 'Brain',
(int) 76 => 'Liver',
(int) 77 => 'Muscle',
(int) 78 => 'Ovary',
(int) 79 => 'Placenta',
(int) 80 => 'Adipose',
(int) 81 => 'Bladder',
(int) 82 => 'Brain',
(int) 83 => 'Breast',
(int) 84 => 'Liver',
(int) 85 => 'Lung',
(int) 86 => 'Muscle',
(int) 87 => 'Ovary',
(int) 88 => 'Placenta',
(int) 89 => 'Adipose',
(int) 90 => 'Bladder',
(int) 91 => 'Breast',
(int) 92 => 'Colon',
(int) 93 => 'Heart',
(int) 94 => 'Kidney',
(int) 95 => 'Liver',
(int) 96 => 'Lung',
(int) 97 => 'Muscle',
(int) 98 => 'Ovary',
(int) 99 => 'Testis',
(int) 100 => 'Placenta',
(int) 101 => 'Adipose',
(int) 102 => 'Bladder',
(int) 103 => 'Brain',
(int) 104 => 'Colon',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Muscle',
(int) 108 => 'Ovary',
(int) 109 => 'Placenta',
(int) 110 => 'Testis',
(int) 111 => 'Brain',
(int) 112 => 'Liver',
(int) 113 => 'Placenta',
(int) 114 => 'Testis'
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
'ENSDARG00000044532' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Liver',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Liver',
(int) 11 => 'Muscle'
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
'ENSDARG00000017007' => array(
[maximum depth reached]
),
'ENSDARG00000083000' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Brain'
)
)
)
$gene_desc_arr = array(
'ENSG00000115159' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSG00000153234' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSG00000226383' => null,
'ENSG00000235548' => null,
'ENSG00000238069' => 'ribosomal protein, large, P0 pseudogene 7',
'ENSG00000263848' => null,
'ENSMUSG00000026826' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSMUSG00000026827' => 'glycerol phosphate dehydrogenase 2, mitochondrial',
'ENSMUSG00000054181' => 'RIKEN cDNA A930012O16 gene',
'ENSMUSG00000080812' => 'predicted gene 13526',
'ENSMUSG00000081642' => 'predicted gene 13532',
'ENSMUSG00000082004' => 'predicted gene 13519',
'ENSMUSG00000082578' => 'predicted gene 13527',
'ENSMUSG00000084292' => 'predicted gene 13535',
'ENSMUSG00000084294' => 'predicted gene 13533',
'ENSMUSG00000084338' => 'predicted gene 13531',
'ENSMUSG00000084938' => 'expressed sequence BB557941',
'ENSMUSG00000086396' => 'RIKEN cDNA 4930555B11 gene',
'ENSMUSG00000087964' => 'predicted gene, 25388',
'ENSMUSG00000098437' => 'microRNA 195b',
'ENSDARG00000044532' => 'nuclear receptor subfamily 4, group A, member 2b',
'ENSDARG00000062430' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSDARG00000087395' => '5S ribosomal RNA',
'ENSDARG00000017007' => 'nuclear receptor subfamily 4, group A, member 2a',
'ENSDARG00000083000' => null,
'ENSDARG00000083114' => null
)
$gene_name_arr = array(
'ENSG00000115159' => 'GPD2',
'ENSG00000153234' => 'NR4A2',
'ENSG00000226383' => 'AC093375.1',
'ENSG00000235548' => 'AC073551.1',
'ENSG00000238069' => 'RPLP0P7',
'ENSG00000263848' => 'AC108057.1',
'ENSMUSG00000026826' => 'Nr4a2',
'ENSMUSG00000026827' => 'Gpd2',
'ENSMUSG00000054181' => 'A930012O16Rik',
'ENSMUSG00000080812' => 'Gm13526',
'ENSMUSG00000081642' => 'Gm13532',
'ENSMUSG00000082004' => 'Gm13519',
'ENSMUSG00000082578' => 'Gm13527',
'ENSMUSG00000084292' => 'Gm13535',
'ENSMUSG00000084294' => 'Gm13533',
'ENSMUSG00000084338' => 'Gm13531',
'ENSMUSG00000084938' => 'BB557941',
'ENSMUSG00000086396' => '4930555B11Rik',
'ENSMUSG00000087964' => 'Gm25388',
'ENSMUSG00000098437' => 'Mir195b',
'ENSDARG00000044532' => 'nr4a2b',
'ENSDARG00000062430' => 'gpd2',
'ENSDARG00000087395' => '5S_rRNA',
'ENSDARG00000017007' => 'nr4a2a',
'ENSDARG00000083000' => 'CU207353.1',
'ENSDARG00000083114' => 'CU207353.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '155519661',
'seq_end' => '157149592',
'region_length' => '1629931',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '56227555',
'seq_end' => '57879432',
'region_length' => '1651877',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0003',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '12270848',
'seq_end' => '12380462',
'region_length' => '109614',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0004',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '4893133',
'seq_end' => '5258189',
'region_length' => '365056',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0005',
'tax_id' => '7955',
'chromosome' => 'Zv9_NA211',
'seq_start' => '6434',
'seq_end' => '6669',
'region_length' => '235',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 39 => 'Brain',
(int) 56 => 'Breast',
(int) 71 => 'Colon',
(int) 84 => 'Heart',
(int) 102 => 'Kidney',
(int) 117 => 'Liver',
(int) 135 => 'Lung',
(int) 147 => 'Muscle',
(int) 164 => 'Ovary',
(int) 180 => 'Placenta',
(int) 200 => '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) 65
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000310454' => array(
'start' => '156435441',
'end' => '156586403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-001'
),
'ENST00000409125' => array(
'start' => '156473572',
'end' => '156583228',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-201'
),
'ENST00000409674' => array(
'start' => '156473572',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-003'
),
'ENST00000409861' => array(
'start' => '156473572',
'end' => '156613735',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-012'
),
'ENST00000415049' => array(
'start' => '156435290',
'end' => '156510849',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-008'
),
'ENST00000416888' => array(
'start' => '156473572',
'end' => '156501844',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-005'
),
'ENST00000430992' => array(
'start' => '156473592',
'end' => '156510834',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-006'
),
'ENST00000438166' => array(
'start' => '156436389',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-002'
),
'ENST00000464846' => array(
'start' => '156571172',
'end' => '156583009',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'GPD2-011'
),
'ENST00000492005' => array(
'start' => '156579083',
'end' => '156583048',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-009'
),
'ENST00000495851' => array(
'start' => '156436427',
'end' => '156501881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-007'
),
'ENST00000496190' => array(
'start' => '156579686',
'end' => '156583273',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-010'
),
'ENST00000540309' => array(
'start' => '156436485',
'end' => '156583404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-202'
),
'ENST00000339562' => array(
'start' => '156324432',
'end' => '156332716',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-001'
),
'ENST00000406048' => array(
'start' => '156327904',
'end' => '156330121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-007'
),
'ENST00000409108' => array(
'start' => '156325744',
'end' => '156330707',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-009'
),
'ENST00000409572' => array(
'start' => '156325098',
'end' => '156342348',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-010'
),
'ENST00000417764' => array(
'start' => '156325100',
'end' => '156330788',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-011'
),
'ENST00000417972' => array(
'start' => '156325100',
'end' => '156331965',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-006'
),
'ENST00000421709' => array(
'start' => '156329678',
'end' => '156332720',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-004'
),
'ENST00000424077' => array(
'start' => '156329413',
'end' => '156332713',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-005'
),
'ENST00000426264' => array(
'start' => '156325082',
'end' => '156332714',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-003'
),
'ENST00000429376' => array(
'start' => '156325744',
'end' => '156330721',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-008'
),
'ENST00000428651' => array(
'start' => '156020535',
'end' => '156024576',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-002'
),
'ENST00000448255' => array(
'start' => '156011617',
'end' => '156024613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-001'
),
'ENST00000450741' => array(
'start' => '156033247',
'end' => '156034080',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC073551.1-001'
),
'ENST00000416050' => array(
'start' => '156777706',
'end' => '156778372',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPLP0P7-001'
),
'ENST00000581968' => array(
'start' => '157015172',
'end' => '157015257',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC108057.1-201'
),
'ENSMUST00000028166' => array(
'start' => '57106830',
'end' => '57115038',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-003'
),
'ENSMUST00000112627' => array(
'start' => '57107499',
'end' => '57113072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-006'
),
'ENSMUST00000112629' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-001'
),
'ENSMUST00000128776' => array(
'start' => '57112990',
'end' => '57114373',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-004'
),
'ENSMUST00000140165' => array(
'start' => '57112003',
'end' => '57115038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-005'
),
'ENSMUST00000183542' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Nr4a2-002'
),
'ENSMUST00000028167' => array(
'start' => '57238382',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-201'
),
'ENSMUST00000112618' => array(
'start' => '57238297',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-001'
),
'ENSMUST00000124689' => array(
'start' => '57265135',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-004'
),
'ENSMUST00000141536' => array(
'start' => '57237635',
'end' => '57367853',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-002'
),
'ENSMUST00000148991' => array(
'start' => '57244362',
'end' => '57306976',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-003'
),
'ENSMUST00000154612' => array(
'start' => '57267377',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-005'
),
'ENSMUST00000169687' => array(
'start' => '57237678',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-202'
),
'ENSMUST00000146529' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-002'
),
'ENSMUST00000156418' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-001'
),
'ENSMUST00000117970' => array(
'start' => '57214054',
'end' => '57214242',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13526-001'
),
'ENSMUST00000120373' => array(
'start' => '57628989',
'end' => '57629228',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13532-001'
),
'ENSMUST00000120500' => array(
'start' => '56853733',
'end' => '56854004',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13519-001'
),
'ENSMUST00000117926' => array(
'start' => '57079748',
'end' => '57080438',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13527-001'
),
'ENSMUST00000118714' => array(
'start' => '57272564',
'end' => '57275686',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13535-001'
),
'ENSMUST00000121104' => array(
'start' => '57643648',
'end' => '57643824',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13533-001'
),
'ENSMUST00000121893' => array(
'start' => '57425167',
'end' => '57425709',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13531-001'
),
'ENSMUST00000126549' => array(
'start' => '57127479',
'end' => '57181754',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'BB557941-001'
),
'ENSMUST00000123210' => array(
'start' => '57181831',
'end' => '57188257',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555B11Rik-001'
),
'ENSMUST00000157339' => array(
'start' => '57653672',
'end' => '57653822',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25388-201'
),
'ENSMUST00000184814' => array(
'start' => '56785811',
'end' => '56785907',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir195b-201'
),
'ENSDART00000065385' => array(
'start' => '12373999',
'end' => '12378470',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2b-001'
),
'ENSDART00000090266' => array(
'start' => '12291586',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-201'
),
'ENSDART00000127495' => array(
'start' => '12292843',
'end' => '12367997',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-202'
),
'ENSDART00000140453' => array(
'start' => '12366415',
'end' => '12371369',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'gpd2-002'
),
'ENSDART00000144028' => array(
'start' => '12292407',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-001'
),
'ENSDART00000121517' => array(
'start' => '12326135',
'end' => '12326249',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1601-201'
),
'ENSDART00000109954' => array(
'start' => '5047097',
'end' => '5051258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-201'
),
'ENSDART00000149268' => array(
'start' => '5048052',
'end' => '5051396',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-001'
),
'ENSDART00000149697' => array(
'start' => '5049105',
'end' => '5050106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'nr4a2a-002'
),
'ENSDART00000116451' => array(
'start' => '5202864',
'end' => '5202948',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.1-201'
),
'ENSDART00000115974' => array(
'start' => '5202694',
'end' => '5202780',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.2-201'
)
)
$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_0007NB_0001' => array(
'genes_in_region' => array(
'ENSG00000115159' => array(
[maximum depth reached]
),
'ENSG00000153234' => array(
[maximum depth reached]
),
'ENSG00000226383' => array(
[maximum depth reached]
),
'ENSG00000235548' => array(
[maximum depth reached]
),
'ENSG00000238069' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Bladder',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Breast',
(int) 9 => 'Kidney',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Liver',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Kidney',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Heart',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Bladder',
(int) 34 => 'Brain',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Lung',
(int) 39 => 'Muscle',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Placenta',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Adipose',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Colon',
(int) 52 => 'Muscle',
(int) 53 => 'Placenta',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Colon',
(int) 58 => 'Heart',
(int) 59 => 'Kidney',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Adipose',
(int) 65 => 'Adrenal',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Bladder',
(int) 74 => 'Brain',
(int) 75 => 'Breast',
(int) 76 => 'Colon',
(int) 77 => 'Heart',
(int) 78 => 'Liver',
(int) 79 => 'Lung',
(int) 80 => 'Ovary',
(int) 81 => 'Testis',
(int) 82 => 'Adrenal',
(int) 83 => 'Lung'
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026826' => array(
[maximum depth reached]
),
'ENSMUSG00000026827' => array(
[maximum depth reached]
),
'ENSMUSG00000081642' => array(
[maximum depth reached]
),
'ENSMUSG00000082004' => array(
[maximum depth reached]
),
'ENSMUSG00000084292' => array(
[maximum depth reached]
),
'ENSMUSG00000084338' => array(
[maximum depth reached]
),
'ENSMUSG00000084938' => array(
[maximum depth reached]
),
'ENSMUSG00000086396' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Bladder',
(int) 3 => 'Brain',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Adipose',
(int) 12 => 'Adrenal',
(int) 13 => 'Breast',
(int) 14 => 'Colon',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Placenta',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Muscle',
(int) 42 => 'Testis',
(int) 43 => 'Adrenal',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Lung',
(int) 47 => 'Muscle',
(int) 48 => 'Ovary',
(int) 49 => 'Adipose',
(int) 50 => 'Adrenal',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Adrenal',
(int) 63 => 'Lung',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Liver',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Adipose',
(int) 74 => 'Bladder',
(int) 75 => 'Brain',
(int) 76 => 'Liver',
(int) 77 => 'Muscle',
(int) 78 => 'Ovary',
(int) 79 => 'Placenta',
(int) 80 => 'Adipose',
(int) 81 => 'Bladder',
(int) 82 => 'Brain',
(int) 83 => 'Breast',
(int) 84 => 'Liver',
(int) 85 => 'Lung',
(int) 86 => 'Muscle',
(int) 87 => 'Ovary',
(int) 88 => 'Placenta',
(int) 89 => 'Adipose',
(int) 90 => 'Bladder',
(int) 91 => 'Breast',
(int) 92 => 'Colon',
(int) 93 => 'Heart',
(int) 94 => 'Kidney',
(int) 95 => 'Liver',
(int) 96 => 'Lung',
(int) 97 => 'Muscle',
(int) 98 => 'Ovary',
(int) 99 => 'Testis',
(int) 100 => 'Placenta',
(int) 101 => 'Adipose',
(int) 102 => 'Bladder',
(int) 103 => 'Brain',
(int) 104 => 'Colon',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Muscle',
(int) 108 => 'Ovary',
(int) 109 => 'Placenta',
(int) 110 => 'Testis',
(int) 111 => 'Brain',
(int) 112 => 'Liver',
(int) 113 => 'Placenta',
(int) 114 => 'Testis'
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
'ENSDARG00000044532' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Liver',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Liver',
(int) 11 => 'Muscle'
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
'ENSDARG00000017007' => array(
[maximum depth reached]
),
'ENSDARG00000083000' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Brain'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0005',
'tax_id' => '7955',
'chromosome' => 'Zv9_NA211',
'seq_start' => '6434',
'seq_end' => '6669',
'region_length' => '235',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
)
$gene_el = array(
'ENSDART00000116451' => array(
'Brain' => array(
'average_FPKM' => '21.327',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000083000'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '21.327',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000116451'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007NB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000115159' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSG00000153234' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSG00000226383' => null,
'ENSG00000235548' => null,
'ENSG00000238069' => 'ribosomal protein, large, P0 pseudogene 7',
'ENSG00000263848' => null,
'ENSMUSG00000026826' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSMUSG00000026827' => 'glycerol phosphate dehydrogenase 2, mitochondrial',
'ENSMUSG00000054181' => 'RIKEN cDNA A930012O16 gene',
'ENSMUSG00000080812' => 'predicted gene 13526',
'ENSMUSG00000081642' => 'predicted gene 13532',
'ENSMUSG00000082004' => 'predicted gene 13519',
'ENSMUSG00000082578' => 'predicted gene 13527',
'ENSMUSG00000084292' => 'predicted gene 13535',
'ENSMUSG00000084294' => 'predicted gene 13533',
'ENSMUSG00000084338' => 'predicted gene 13531',
'ENSMUSG00000084938' => 'expressed sequence BB557941',
'ENSMUSG00000086396' => 'RIKEN cDNA 4930555B11 gene',
'ENSMUSG00000087964' => 'predicted gene, 25388',
'ENSMUSG00000098437' => 'microRNA 195b',
'ENSDARG00000044532' => 'nuclear receptor subfamily 4, group A, member 2b',
'ENSDARG00000062430' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSDARG00000087395' => '5S ribosomal RNA',
'ENSDARG00000017007' => 'nuclear receptor subfamily 4, group A, member 2a',
'ENSDARG00000083000' => null,
'ENSDARG00000083114' => null
),
'gene_name_arr' => array(
'ENSG00000115159' => 'GPD2',
'ENSG00000153234' => 'NR4A2',
'ENSG00000226383' => 'AC093375.1',
'ENSG00000235548' => 'AC073551.1',
'ENSG00000238069' => 'RPLP0P7',
'ENSG00000263848' => 'AC108057.1',
'ENSMUSG00000026826' => 'Nr4a2',
'ENSMUSG00000026827' => 'Gpd2',
'ENSMUSG00000054181' => 'A930012O16Rik',
'ENSMUSG00000080812' => 'Gm13526',
'ENSMUSG00000081642' => 'Gm13532',
'ENSMUSG00000082004' => 'Gm13519',
'ENSMUSG00000082578' => 'Gm13527',
'ENSMUSG00000084292' => 'Gm13535',
'ENSMUSG00000084294' => 'Gm13533',
'ENSMUSG00000084338' => 'Gm13531',
'ENSMUSG00000084938' => 'BB557941',
'ENSMUSG00000086396' => '4930555B11Rik',
'ENSMUSG00000087964' => 'Gm25388',
'ENSMUSG00000098437' => 'Mir195b',
'ENSDARG00000044532' => 'nr4a2b',
'ENSDARG00000062430' => 'gpd2',
'ENSDARG00000087395' => '5S_rRNA',
'ENSDARG00000017007' => 'nr4a2a',
'ENSDARG00000083000' => 'CU207353.1',
'ENSDARG00000083114' => 'CU207353.2'
),
'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]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 39 => 'Brain',
(int) 56 => 'Breast',
(int) 71 => 'Colon',
(int) 84 => 'Heart',
(int) 102 => 'Kidney',
(int) 117 => 'Liver',
(int) 135 => 'Lung',
(int) 147 => 'Muscle',
(int) 164 => 'Ovary',
(int) 180 => 'Placenta',
(int) 200 => '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) 65,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000310454' => array(
'start' => '156435441',
'end' => '156586403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-001'
),
'ENST00000409125' => array(
'start' => '156473572',
'end' => '156583228',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-201'
),
'ENST00000409674' => array(
'start' => '156473572',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-003'
),
'ENST00000409861' => array(
'start' => '156473572',
'end' => '156613735',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-012'
),
'ENST00000415049' => array(
'start' => '156435290',
'end' => '156510849',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-008'
),
'ENST00000416888' => array(
'start' => '156473572',
'end' => '156501844',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-005'
),
'ENST00000430992' => array(
'start' => '156473592',
'end' => '156510834',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-006'
),
'ENST00000438166' => array(
'start' => '156436389',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-002'
),
'ENST00000464846' => array(
'start' => '156571172',
'end' => '156583009',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'GPD2-011'
),
'ENST00000492005' => array(
'start' => '156579083',
'end' => '156583048',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-009'
),
'ENST00000495851' => array(
'start' => '156436427',
'end' => '156501881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-007'
),
'ENST00000496190' => array(
'start' => '156579686',
'end' => '156583273',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-010'
),
'ENST00000540309' => array(
'start' => '156436485',
'end' => '156583404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-202'
),
'ENST00000339562' => array(
'start' => '156324432',
'end' => '156332716',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-001'
),
'ENST00000406048' => array(
'start' => '156327904',
'end' => '156330121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-007'
),
'ENST00000409108' => array(
'start' => '156325744',
'end' => '156330707',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-009'
),
'ENST00000409572' => array(
'start' => '156325098',
'end' => '156342348',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-010'
),
'ENST00000417764' => array(
'start' => '156325100',
'end' => '156330788',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-011'
),
'ENST00000417972' => array(
'start' => '156325100',
'end' => '156331965',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-006'
),
'ENST00000421709' => array(
'start' => '156329678',
'end' => '156332720',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-004'
),
'ENST00000424077' => array(
'start' => '156329413',
'end' => '156332713',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-005'
),
'ENST00000426264' => array(
'start' => '156325082',
'end' => '156332714',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-003'
),
'ENST00000429376' => array(
'start' => '156325744',
'end' => '156330721',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-008'
),
'ENST00000428651' => array(
'start' => '156020535',
'end' => '156024576',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-002'
),
'ENST00000448255' => array(
'start' => '156011617',
'end' => '156024613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-001'
),
'ENST00000450741' => array(
'start' => '156033247',
'end' => '156034080',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC073551.1-001'
),
'ENST00000416050' => array(
'start' => '156777706',
'end' => '156778372',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPLP0P7-001'
),
'ENST00000581968' => array(
'start' => '157015172',
'end' => '157015257',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC108057.1-201'
),
'ENSMUST00000028166' => array(
'start' => '57106830',
'end' => '57115038',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-003'
),
'ENSMUST00000112627' => array(
'start' => '57107499',
'end' => '57113072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-006'
),
'ENSMUST00000112629' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-001'
),
'ENSMUST00000128776' => array(
'start' => '57112990',
'end' => '57114373',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-004'
),
'ENSMUST00000140165' => array(
'start' => '57112003',
'end' => '57115038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-005'
),
'ENSMUST00000183542' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Nr4a2-002'
),
'ENSMUST00000028167' => array(
'start' => '57238382',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-201'
),
'ENSMUST00000112618' => array(
'start' => '57238297',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-001'
),
'ENSMUST00000124689' => array(
'start' => '57265135',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-004'
),
'ENSMUST00000141536' => array(
'start' => '57237635',
'end' => '57367853',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-002'
),
'ENSMUST00000148991' => array(
'start' => '57244362',
'end' => '57306976',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-003'
),
'ENSMUST00000154612' => array(
'start' => '57267377',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-005'
),
'ENSMUST00000169687' => array(
'start' => '57237678',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-202'
),
'ENSMUST00000146529' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-002'
),
'ENSMUST00000156418' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-001'
),
'ENSMUST00000117970' => array(
'start' => '57214054',
'end' => '57214242',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13526-001'
),
'ENSMUST00000120373' => array(
'start' => '57628989',
'end' => '57629228',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13532-001'
),
'ENSMUST00000120500' => array(
'start' => '56853733',
'end' => '56854004',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13519-001'
),
'ENSMUST00000117926' => array(
'start' => '57079748',
'end' => '57080438',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13527-001'
),
'ENSMUST00000118714' => array(
'start' => '57272564',
'end' => '57275686',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13535-001'
),
'ENSMUST00000121104' => array(
'start' => '57643648',
'end' => '57643824',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13533-001'
),
'ENSMUST00000121893' => array(
'start' => '57425167',
'end' => '57425709',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13531-001'
),
'ENSMUST00000126549' => array(
'start' => '57127479',
'end' => '57181754',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'BB557941-001'
),
'ENSMUST00000123210' => array(
'start' => '57181831',
'end' => '57188257',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555B11Rik-001'
),
'ENSMUST00000157339' => array(
'start' => '57653672',
'end' => '57653822',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25388-201'
),
'ENSMUST00000184814' => array(
'start' => '56785811',
'end' => '56785907',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir195b-201'
),
'ENSDART00000065385' => array(
'start' => '12373999',
'end' => '12378470',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2b-001'
),
'ENSDART00000090266' => array(
'start' => '12291586',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-201'
),
'ENSDART00000127495' => array(
'start' => '12292843',
'end' => '12367997',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-202'
),
'ENSDART00000140453' => array(
'start' => '12366415',
'end' => '12371369',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'gpd2-002'
),
'ENSDART00000144028' => array(
'start' => '12292407',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-001'
),
'ENSDART00000121517' => array(
'start' => '12326135',
'end' => '12326249',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1601-201'
),
'ENSDART00000109954' => array(
'start' => '5047097',
'end' => '5051258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-201'
),
'ENSDART00000149268' => array(
'start' => '5048052',
'end' => '5051396',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-001'
),
'ENSDART00000149697' => array(
'start' => '5049105',
'end' => '5050106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'nr4a2a-002'
),
'ENSDART00000116451' => array(
'start' => '5202864',
'end' => '5202948',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.1-201'
),
'ENSDART00000115974' => array(
'start' => '5202694',
'end' => '5202780',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.2-201'
)
),
'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_0007NB_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007NB_0001' => array(
'genes_in_region' => array(
'ENSG00000115159' => array(
[maximum depth reached]
),
'ENSG00000153234' => array(
[maximum depth reached]
),
'ENSG00000226383' => array(
[maximum depth reached]
),
'ENSG00000235548' => array(
[maximum depth reached]
),
'ENSG00000238069' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Bladder',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Breast',
(int) 9 => 'Kidney',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Liver',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Kidney',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Heart',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Bladder',
(int) 34 => 'Brain',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Lung',
(int) 39 => 'Muscle',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Placenta',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Adipose',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Colon',
(int) 52 => 'Muscle',
(int) 53 => 'Placenta',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Colon',
(int) 58 => 'Heart',
(int) 59 => 'Kidney',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Adipose',
(int) 65 => 'Adrenal',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Bladder',
(int) 74 => 'Brain',
(int) 75 => 'Breast',
(int) 76 => 'Colon',
(int) 77 => 'Heart',
(int) 78 => 'Liver',
(int) 79 => 'Lung',
(int) 80 => 'Ovary',
(int) 81 => 'Testis',
(int) 82 => 'Adrenal',
(int) 83 => 'Lung'
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026826' => array(
[maximum depth reached]
),
'ENSMUSG00000026827' => array(
[maximum depth reached]
),
'ENSMUSG00000081642' => array(
[maximum depth reached]
),
'ENSMUSG00000082004' => array(
[maximum depth reached]
),
'ENSMUSG00000084292' => array(
[maximum depth reached]
),
'ENSMUSG00000084338' => array(
[maximum depth reached]
),
'ENSMUSG00000084938' => array(
[maximum depth reached]
),
'ENSMUSG00000086396' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Bladder',
(int) 3 => 'Brain',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Adipose',
(int) 12 => 'Adrenal',
(int) 13 => 'Breast',
(int) 14 => 'Colon',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Placenta',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Muscle',
(int) 42 => 'Testis',
(int) 43 => 'Adrenal',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Lung',
(int) 47 => 'Muscle',
(int) 48 => 'Ovary',
(int) 49 => 'Adipose',
(int) 50 => 'Adrenal',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Adrenal',
(int) 63 => 'Lung',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Liver',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Adipose',
(int) 74 => 'Bladder',
(int) 75 => 'Brain',
(int) 76 => 'Liver',
(int) 77 => 'Muscle',
(int) 78 => 'Ovary',
(int) 79 => 'Placenta',
(int) 80 => 'Adipose',
(int) 81 => 'Bladder',
(int) 82 => 'Brain',
(int) 83 => 'Breast',
(int) 84 => 'Liver',
(int) 85 => 'Lung',
(int) 86 => 'Muscle',
(int) 87 => 'Ovary',
(int) 88 => 'Placenta',
(int) 89 => 'Adipose',
(int) 90 => 'Bladder',
(int) 91 => 'Breast',
(int) 92 => 'Colon',
(int) 93 => 'Heart',
(int) 94 => 'Kidney',
(int) 95 => 'Liver',
(int) 96 => 'Lung',
(int) 97 => 'Muscle',
(int) 98 => 'Ovary',
(int) 99 => 'Testis',
(int) 100 => 'Placenta',
(int) 101 => 'Adipose',
(int) 102 => 'Bladder',
(int) 103 => 'Brain',
(int) 104 => 'Colon',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Muscle',
(int) 108 => 'Ovary',
(int) 109 => 'Placenta',
(int) 110 => 'Testis',
(int) 111 => 'Brain',
(int) 112 => 'Liver',
(int) 113 => 'Placenta',
(int) 114 => 'Testis'
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
'ENSDARG00000044532' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Liver',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Liver',
(int) 11 => 'Muscle'
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
'ENSDARG00000017007' => array(
[maximum depth reached]
),
'ENSDARG00000083000' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Brain'
)
)
)
$gene_desc_arr = array(
'ENSG00000115159' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSG00000153234' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSG00000226383' => null,
'ENSG00000235548' => null,
'ENSG00000238069' => 'ribosomal protein, large, P0 pseudogene 7',
'ENSG00000263848' => null,
'ENSMUSG00000026826' => 'nuclear receptor subfamily 4, group A, member 2',
'ENSMUSG00000026827' => 'glycerol phosphate dehydrogenase 2, mitochondrial',
'ENSMUSG00000054181' => 'RIKEN cDNA A930012O16 gene',
'ENSMUSG00000080812' => 'predicted gene 13526',
'ENSMUSG00000081642' => 'predicted gene 13532',
'ENSMUSG00000082004' => 'predicted gene 13519',
'ENSMUSG00000082578' => 'predicted gene 13527',
'ENSMUSG00000084292' => 'predicted gene 13535',
'ENSMUSG00000084294' => 'predicted gene 13533',
'ENSMUSG00000084338' => 'predicted gene 13531',
'ENSMUSG00000084938' => 'expressed sequence BB557941',
'ENSMUSG00000086396' => 'RIKEN cDNA 4930555B11 gene',
'ENSMUSG00000087964' => 'predicted gene, 25388',
'ENSMUSG00000098437' => 'microRNA 195b',
'ENSDARG00000044532' => 'nuclear receptor subfamily 4, group A, member 2b',
'ENSDARG00000062430' => 'glycerol-3-phosphate dehydrogenase 2 (mitochondrial)',
'ENSDARG00000087395' => '5S ribosomal RNA',
'ENSDARG00000017007' => 'nuclear receptor subfamily 4, group A, member 2a',
'ENSDARG00000083000' => null,
'ENSDARG00000083114' => null
)
$gene_name_arr = array(
'ENSG00000115159' => 'GPD2',
'ENSG00000153234' => 'NR4A2',
'ENSG00000226383' => 'AC093375.1',
'ENSG00000235548' => 'AC073551.1',
'ENSG00000238069' => 'RPLP0P7',
'ENSG00000263848' => 'AC108057.1',
'ENSMUSG00000026826' => 'Nr4a2',
'ENSMUSG00000026827' => 'Gpd2',
'ENSMUSG00000054181' => 'A930012O16Rik',
'ENSMUSG00000080812' => 'Gm13526',
'ENSMUSG00000081642' => 'Gm13532',
'ENSMUSG00000082004' => 'Gm13519',
'ENSMUSG00000082578' => 'Gm13527',
'ENSMUSG00000084292' => 'Gm13535',
'ENSMUSG00000084294' => 'Gm13533',
'ENSMUSG00000084338' => 'Gm13531',
'ENSMUSG00000084938' => 'BB557941',
'ENSMUSG00000086396' => '4930555B11Rik',
'ENSMUSG00000087964' => 'Gm25388',
'ENSMUSG00000098437' => 'Mir195b',
'ENSDARG00000044532' => 'nr4a2b',
'ENSDARG00000062430' => 'gpd2',
'ENSDARG00000087395' => '5S_rRNA',
'ENSDARG00000017007' => 'nr4a2a',
'ENSDARG00000083000' => 'CU207353.1',
'ENSDARG00000083114' => 'CU207353.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '155519661',
'seq_end' => '157149592',
'region_length' => '1629931',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '56227555',
'seq_end' => '57879432',
'region_length' => '1651877',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0003',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '12270848',
'seq_end' => '12380462',
'region_length' => '109614',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0004',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '4893133',
'seq_end' => '5258189',
'region_length' => '365056',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0005',
'tax_id' => '7955',
'chromosome' => 'Zv9_NA211',
'seq_start' => '6434',
'seq_end' => '6669',
'region_length' => '235',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 39 => 'Brain',
(int) 56 => 'Breast',
(int) 71 => 'Colon',
(int) 84 => 'Heart',
(int) 102 => 'Kidney',
(int) 117 => 'Liver',
(int) 135 => 'Lung',
(int) 147 => 'Muscle',
(int) 164 => 'Ovary',
(int) 180 => 'Placenta',
(int) 200 => '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) 65
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000310454' => array(
'start' => '156435441',
'end' => '156586403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-001'
),
'ENST00000409125' => array(
'start' => '156473572',
'end' => '156583228',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-201'
),
'ENST00000409674' => array(
'start' => '156473572',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-003'
),
'ENST00000409861' => array(
'start' => '156473572',
'end' => '156613735',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-012'
),
'ENST00000415049' => array(
'start' => '156435290',
'end' => '156510849',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-008'
),
'ENST00000416888' => array(
'start' => '156473572',
'end' => '156501844',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-005'
),
'ENST00000430992' => array(
'start' => '156473592',
'end' => '156510834',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'GPD2-006'
),
'ENST00000438166' => array(
'start' => '156436389',
'end' => '156583058',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-002'
),
'ENST00000464846' => array(
'start' => '156571172',
'end' => '156583009',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'GPD2-011'
),
'ENST00000492005' => array(
'start' => '156579083',
'end' => '156583048',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-009'
),
'ENST00000495851' => array(
'start' => '156436427',
'end' => '156501881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-007'
),
'ENST00000496190' => array(
'start' => '156579686',
'end' => '156583273',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'GPD2-010'
),
'ENST00000540309' => array(
'start' => '156436485',
'end' => '156583404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'GPD2-202'
),
'ENST00000339562' => array(
'start' => '156324432',
'end' => '156332716',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-001'
),
'ENST00000406048' => array(
'start' => '156327904',
'end' => '156330121',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-007'
),
'ENST00000409108' => array(
'start' => '156325744',
'end' => '156330707',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-009'
),
'ENST00000409572' => array(
'start' => '156325098',
'end' => '156342348',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-010'
),
'ENST00000417764' => array(
'start' => '156325100',
'end' => '156330788',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-011'
),
'ENST00000417972' => array(
'start' => '156325100',
'end' => '156331965',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NR4A2-006'
),
'ENST00000421709' => array(
'start' => '156329678',
'end' => '156332720',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-004'
),
'ENST00000424077' => array(
'start' => '156329413',
'end' => '156332713',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-005'
),
'ENST00000426264' => array(
'start' => '156325082',
'end' => '156332714',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-003'
),
'ENST00000429376' => array(
'start' => '156325744',
'end' => '156330721',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NR4A2-008'
),
'ENST00000428651' => array(
'start' => '156020535',
'end' => '156024576',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-002'
),
'ENST00000448255' => array(
'start' => '156011617',
'end' => '156024613',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'AC093375.1-001'
),
'ENST00000450741' => array(
'start' => '156033247',
'end' => '156034080',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'AC073551.1-001'
),
'ENST00000416050' => array(
'start' => '156777706',
'end' => '156778372',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPLP0P7-001'
),
'ENST00000581968' => array(
'start' => '157015172',
'end' => '157015257',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC108057.1-201'
),
'ENSMUST00000028166' => array(
'start' => '57106830',
'end' => '57115038',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-003'
),
'ENSMUST00000112627' => array(
'start' => '57107499',
'end' => '57113072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-006'
),
'ENSMUST00000112629' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nr4a2-001'
),
'ENSMUST00000128776' => array(
'start' => '57112990',
'end' => '57114373',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-004'
),
'ENSMUST00000140165' => array(
'start' => '57112003',
'end' => '57115038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Nr4a2-005'
),
'ENSMUST00000183542' => array(
'start' => '57106830',
'end' => '57124003',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Nr4a2-002'
),
'ENSMUST00000028167' => array(
'start' => '57238382',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-201'
),
'ENSMUST00000112618' => array(
'start' => '57238297',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-001'
),
'ENSMUST00000124689' => array(
'start' => '57265135',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-004'
),
'ENSMUST00000141536' => array(
'start' => '57237635',
'end' => '57367853',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-002'
),
'ENSMUST00000148991' => array(
'start' => '57244362',
'end' => '57306976',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-003'
),
'ENSMUST00000154612' => array(
'start' => '57267377',
'end' => '57268108',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gpd2-005'
),
'ENSMUST00000169687' => array(
'start' => '57237678',
'end' => '57370719',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gpd2-202'
),
'ENSMUST00000146529' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-002'
),
'ENSMUST00000156418' => array(
'start' => '57236227',
'end' => '57238508',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'A930012O16Rik-001'
),
'ENSMUST00000117970' => array(
'start' => '57214054',
'end' => '57214242',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13526-001'
),
'ENSMUST00000120373' => array(
'start' => '57628989',
'end' => '57629228',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13532-001'
),
'ENSMUST00000120500' => array(
'start' => '56853733',
'end' => '56854004',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13519-001'
),
'ENSMUST00000117926' => array(
'start' => '57079748',
'end' => '57080438',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13527-001'
),
'ENSMUST00000118714' => array(
'start' => '57272564',
'end' => '57275686',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13535-001'
),
'ENSMUST00000121104' => array(
'start' => '57643648',
'end' => '57643824',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13533-001'
),
'ENSMUST00000121893' => array(
'start' => '57425167',
'end' => '57425709',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm13531-001'
),
'ENSMUST00000126549' => array(
'start' => '57127479',
'end' => '57181754',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'BB557941-001'
),
'ENSMUST00000123210' => array(
'start' => '57181831',
'end' => '57188257',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930555B11Rik-001'
),
'ENSMUST00000157339' => array(
'start' => '57653672',
'end' => '57653822',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm25388-201'
),
'ENSMUST00000184814' => array(
'start' => '56785811',
'end' => '56785907',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Mir195b-201'
),
'ENSDART00000065385' => array(
'start' => '12373999',
'end' => '12378470',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2b-001'
),
'ENSDART00000090266' => array(
'start' => '12291586',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-201'
),
'ENSDART00000127495' => array(
'start' => '12292843',
'end' => '12367997',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-202'
),
'ENSDART00000140453' => array(
'start' => '12366415',
'end' => '12371369',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'gpd2-002'
),
'ENSDART00000144028' => array(
'start' => '12292407',
'end' => '12371332',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'gpd2-001'
),
'ENSDART00000121517' => array(
'start' => '12326135',
'end' => '12326249',
'transcript_biotype' => 'rRNA',
'transcript_name' => '5S_rRNA.1601-201'
),
'ENSDART00000109954' => array(
'start' => '5047097',
'end' => '5051258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-201'
),
'ENSDART00000149268' => array(
'start' => '5048052',
'end' => '5051396',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'nr4a2a-001'
),
'ENSDART00000149697' => array(
'start' => '5049105',
'end' => '5050106',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'nr4a2a-002'
),
'ENSDART00000116451' => array(
'start' => '5202864',
'end' => '5202948',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.1-201'
),
'ENSDART00000115974' => array(
'start' => '5202694',
'end' => '5202780',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'CU207353.2-201'
)
)
$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_0007NB_0001' => array(
'genes_in_region' => array(
'ENSG00000115159' => array(
[maximum depth reached]
),
'ENSG00000153234' => array(
[maximum depth reached]
),
'ENSG00000226383' => array(
[maximum depth reached]
),
'ENSG00000235548' => array(
[maximum depth reached]
),
'ENSG00000238069' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Bladder',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Heart',
(int) 4 => 'Kidney',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Breast',
(int) 9 => 'Kidney',
(int) 10 => 'Muscle',
(int) 11 => 'Testis',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Liver',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Kidney',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Brain',
(int) 22 => 'Breast',
(int) 23 => 'Colon',
(int) 24 => 'Heart',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adipose',
(int) 30 => 'Heart',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Bladder',
(int) 34 => 'Brain',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Lung',
(int) 39 => 'Muscle',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Placenta',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Adipose',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Colon',
(int) 52 => 'Muscle',
(int) 53 => 'Placenta',
(int) 54 => 'Adrenal',
(int) 55 => 'Bladder',
(int) 56 => 'Brain',
(int) 57 => 'Colon',
(int) 58 => 'Heart',
(int) 59 => 'Kidney',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Placenta',
(int) 63 => 'Testis',
(int) 64 => 'Adipose',
(int) 65 => 'Adrenal',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Testis',
(int) 71 => 'Adipose',
(int) 72 => 'Adrenal',
(int) 73 => 'Bladder',
(int) 74 => 'Brain',
(int) 75 => 'Breast',
(int) 76 => 'Colon',
(int) 77 => 'Heart',
(int) 78 => 'Liver',
(int) 79 => 'Lung',
(int) 80 => 'Ovary',
(int) 81 => 'Testis',
(int) 82 => 'Adrenal',
(int) 83 => 'Lung'
)
),
'CIL_0007NB_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000026826' => array(
[maximum depth reached]
),
'ENSMUSG00000026827' => array(
[maximum depth reached]
),
'ENSMUSG00000081642' => array(
[maximum depth reached]
),
'ENSMUSG00000082004' => array(
[maximum depth reached]
),
'ENSMUSG00000084292' => array(
[maximum depth reached]
),
'ENSMUSG00000084338' => array(
[maximum depth reached]
),
'ENSMUSG00000084938' => array(
[maximum depth reached]
),
'ENSMUSG00000086396' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Bladder',
(int) 3 => 'Brain',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Adipose',
(int) 12 => 'Adrenal',
(int) 13 => 'Breast',
(int) 14 => 'Colon',
(int) 15 => 'Heart',
(int) 16 => 'Kidney',
(int) 17 => 'Liver',
(int) 18 => 'Muscle',
(int) 19 => 'Ovary',
(int) 20 => 'Placenta',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Muscle',
(int) 42 => 'Testis',
(int) 43 => 'Adrenal',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Lung',
(int) 47 => 'Muscle',
(int) 48 => 'Ovary',
(int) 49 => 'Adipose',
(int) 50 => 'Adrenal',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Adrenal',
(int) 63 => 'Lung',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Bladder',
(int) 69 => 'Brain',
(int) 70 => 'Liver',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Adipose',
(int) 74 => 'Bladder',
(int) 75 => 'Brain',
(int) 76 => 'Liver',
(int) 77 => 'Muscle',
(int) 78 => 'Ovary',
(int) 79 => 'Placenta',
(int) 80 => 'Adipose',
(int) 81 => 'Bladder',
(int) 82 => 'Brain',
(int) 83 => 'Breast',
(int) 84 => 'Liver',
(int) 85 => 'Lung',
(int) 86 => 'Muscle',
(int) 87 => 'Ovary',
(int) 88 => 'Placenta',
(int) 89 => 'Adipose',
(int) 90 => 'Bladder',
(int) 91 => 'Breast',
(int) 92 => 'Colon',
(int) 93 => 'Heart',
(int) 94 => 'Kidney',
(int) 95 => 'Liver',
(int) 96 => 'Lung',
(int) 97 => 'Muscle',
(int) 98 => 'Ovary',
(int) 99 => 'Testis',
(int) 100 => 'Placenta',
(int) 101 => 'Adipose',
(int) 102 => 'Bladder',
(int) 103 => 'Brain',
(int) 104 => 'Colon',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Muscle',
(int) 108 => 'Ovary',
(int) 109 => 'Placenta',
(int) 110 => 'Testis',
(int) 111 => 'Brain',
(int) 112 => 'Liver',
(int) 113 => 'Placenta',
(int) 114 => 'Testis'
)
),
'CIL_0007NB_0003' => array(
'genes_in_region' => array(
'ENSDARG00000044532' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Liver',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Brain',
(int) 9 => 'Heart',
(int) 10 => 'Liver',
(int) 11 => 'Muscle'
)
),
'CIL_0007NB_0004' => array(
'genes_in_region' => array(
'ENSDARG00000017007' => array(
[maximum depth reached]
),
'ENSDARG00000083000' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Muscle',
(int) 2 => 'Brain',
(int) 3 => 'Heart',
(int) 4 => 'Brain'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007NB_0005',
'tax_id' => '7955',
'chromosome' => 'Zv9_NA211',
'seq_start' => '6434',
'seq_end' => '6669',
'region_length' => '235',
'region_type' => 'UCNEbase',
'el_id' => 'NR4A2'
)
)
$gene_el = array(
'ENSDART00000116451' => array(
'Brain' => array(
'average_FPKM' => '21.327',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000083000'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '21.327',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000116451'
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
(GPD2)