| Source ID |
Type |
Tax ID |
Position |
| EBF2 |
UCNEbase |
7955 |
5:70425726-70425853  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007MZ_0003 [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_0007MZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000199620' => 'RNA, 5S ribosomal pseudogene 258',
'ENSG00000221818' => 'early B-cell factor 2',
'ENSG00000221914' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSG00000249213' => null,
'ENSMUSG00000022052' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSMUSG00000022053' => 'early B cell factor 2',
'ENSMUSG00000075549' => 'predicted gene 6878',
'ENSMUSG00000080432' => 'predicted gene, 23178',
'ENSMUSG00000093386' => 'RIKEN cDNA 1700120O09 gene',
'ENSMUSG00000093472' => 'RIKEN cDNA 4930438E09 gene',
'ENSMUSG00000093744' => 'predicted gene 20675',
'ENSMUSG00000098365' => 'predicted gene, 27647'
),
'gene_name_arr' => array(
'ENSG00000199620' => 'RNA5SP258',
'ENSG00000221818' => 'EBF2',
'ENSG00000221914' => 'PPP2R2A',
'ENSG00000249213' => 'RP11-98P2.1',
'ENSMUSG00000022052' => 'Ppp2r2a',
'ENSMUSG00000022053' => 'Ebf2',
'ENSMUSG00000075549' => 'Gm6878',
'ENSMUSG00000080432' => 'Gm23178',
'ENSMUSG00000093386' => '1700120O09Rik',
'ENSMUSG00000093472' => '4930438E09Rik',
'ENSMUSG00000093744' => 'Gm20675',
'ENSMUSG00000098365' => 'Gm27647'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 9 => 'Adrenal',
(int) 20 => 'Bladder',
(int) 28 => 'Brain',
(int) 39 => 'Breast',
(int) 53 => 'Colon',
(int) 62 => 'Heart',
(int) 71 => 'Kidney',
(int) 80 => 'Liver',
(int) 89 => 'Lung',
(int) 101 => 'Muscle',
(int) 109 => 'Ovary',
(int) 124 => 'Placenta',
(int) 138 => '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) 40,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000362750' => array(
'start' => '26136880',
'end' => '26136998',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP258-201'
),
'ENST00000408929' => array(
'start' => '25844362',
'end' => '26041488',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-002'
),
'ENST00000517825' => array(
'start' => '26031450',
'end' => '26045178',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'EBF2-003'
),
'ENST00000520164' => array(
'start' => '25841730',
'end' => '26045397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-001'
),
'ENST00000535548' => array(
'start' => '25844609',
'end' => '25887916',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-201'
),
'ENST00000315985' => array(
'start' => '26293216',
'end' => '26370886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-002'
),
'ENST00000380737' => array(
'start' => '26291491',
'end' => '26372680',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-001'
),
'ENST00000517754' => array(
'start' => '26361090',
'end' => '26371129',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-003'
),
'ENST00000518208' => array(
'start' => '26365098',
'end' => '26370314',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-024'
),
'ENST00000518215' => array(
'start' => '26354419',
'end' => '26370363',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-020'
),
'ENST00000518254' => array(
'start' => '26291528',
'end' => '26354630',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-017'
),
'ENST00000518397' => array(
'start' => '26291614',
'end' => '26361012',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-021'
),
'ENST00000518890' => array(
'start' => '26360600',
'end' => '26370391',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-023'
),
'ENST00000519439' => array(
'start' => '26293572',
'end' => '26361085',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-018'
),
'ENST00000519636' => array(
'start' => '26293216',
'end' => '26360182',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-015'
),
'ENST00000520329' => array(
'start' => '26291528',
'end' => '26360281',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-010'
),
'ENST00000520438' => array(
'start' => '26339919',
'end' => '26360235',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-022'
),
'ENST00000521095' => array(
'start' => '26292119',
'end' => '26354550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-009'
),
'ENST00000521484' => array(
'start' => '26293590',
'end' => '26360238',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-019'
),
'ENST00000521557' => array(
'start' => '26293483',
'end' => '26361033',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-016'
),
'ENST00000522150' => array(
'start' => '26292113',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-007'
),
'ENST00000522482' => array(
'start' => '26293217',
'end' => '26354637',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-014'
),
'ENST00000522535' => array(
'start' => '26291835',
'end' => '26361001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-006'
),
'ENST00000523473' => array(
'start' => '26292117',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-008'
),
'ENST00000523925' => array(
'start' => '26293112',
'end' => '26361007',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-012'
),
'ENST00000523964' => array(
'start' => '26298575',
'end' => '26361044',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-011'
),
'ENST00000524099' => array(
'start' => '26293206',
'end' => '26360237',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-013'
),
'ENST00000524169' => array(
'start' => '26291539',
'end' => '26370324',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-004'
),
'ENST00000512187' => array(
'start' => '26254883',
'end' => '26256628',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-98P2.1-001'
),
'ENSMUST00000089230' => array(
'start' => '67014057',
'end' => '67072471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ppp2r2a-201'
),
'ENSMUST00000022637' => array(
'start' => '67233292',
'end' => '67429777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-001'
),
'ENSMUST00000176029' => array(
'start' => '67234644',
'end' => '67428687',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-004'
),
'ENSMUST00000176161' => array(
'start' => '67233586',
'end' => '67430918',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-003'
),
'ENSMUST00000177231' => array(
'start' => '67233603',
'end' => '67236513',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ebf2-002'
),
'ENSMUST00000100448' => array(
'start' => '67304888',
'end' => '67314711',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm6878-001'
),
'ENSMUST00000116782' => array(
'start' => '67274869',
'end' => '67274963',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm23178-201'
),
'ENSMUST00000177127' => array(
'start' => '67324894',
'end' => '67335928',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700120O09Rik-001'
),
'ENSMUST00000176841' => array(
'start' => '67332042',
'end' => '67397742',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930438E09Rik-001'
),
'ENSMUST00000175861' => array(
'start' => '67232437',
'end' => '67233129',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm20675-001'
),
'ENSMUST00000184709' => array(
'start' => '67074830',
'end' => '67074947',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27647-201'
)
),
'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_0007MZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007MZ_0001' => array(
'genes_in_region' => array(
'ENSG00000221818' => array(
[maximum depth reached]
),
'ENSG00000221914' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Placenta',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Ovary',
(int) 9 => 'Placenta',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Lung',
(int) 27 => 'Muscle',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Heart',
(int) 48 => 'Kidney',
(int) 49 => 'Liver',
(int) 50 => 'Lung',
(int) 51 => 'Muscle',
(int) 52 => 'Ovary',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adrenal',
(int) 56 => 'Bladder',
(int) 57 => 'Breast',
(int) 58 => 'Kidney',
(int) 59 => 'Lung',
(int) 60 => 'Muscle',
(int) 61 => 'Ovary',
(int) 62 => 'Kidney',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Heart',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Ovary',
(int) 69 => 'Colon',
(int) 70 => 'Ovary',
(int) 71 => 'Placenta',
(int) 72 => 'Testis',
(int) 73 => 'Bladder',
(int) 74 => 'Ovary',
(int) 75 => 'Placenta',
(int) 76 => 'Testis'
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000022052' => array(
[maximum depth reached]
),
'ENSMUSG00000022053' => array(
[maximum depth reached]
),
'ENSMUSG00000075549' => array(
[maximum depth reached]
),
'ENSMUSG00000093386' => array(
[maximum depth reached]
),
'ENSMUSG00000093472' => array(
[maximum depth reached]
),
'ENSMUSG00000093744' => 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 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Ovary',
(int) 12 => 'Placenta',
(int) 13 => 'Testis',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Bladder',
(int) 44 => 'Breast',
(int) 45 => 'Heart',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Placenta',
(int) 60 => 'Testis',
(int) 61 => 'Adipose',
(int) 62 => 'Brain',
(int) 63 => 'Breast',
(int) 64 => 'Placenta',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Brain',
(int) 69 => 'Breast',
(int) 70 => 'Muscle',
(int) 71 => 'Placenta'
)
)
)
$gene_desc_arr = array(
'ENSG00000199620' => 'RNA, 5S ribosomal pseudogene 258',
'ENSG00000221818' => 'early B-cell factor 2',
'ENSG00000221914' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSG00000249213' => null,
'ENSMUSG00000022052' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSMUSG00000022053' => 'early B cell factor 2',
'ENSMUSG00000075549' => 'predicted gene 6878',
'ENSMUSG00000080432' => 'predicted gene, 23178',
'ENSMUSG00000093386' => 'RIKEN cDNA 1700120O09 gene',
'ENSMUSG00000093472' => 'RIKEN cDNA 4930438E09 gene',
'ENSMUSG00000093744' => 'predicted gene 20675',
'ENSMUSG00000098365' => 'predicted gene, 27647'
)
$gene_name_arr = array(
'ENSG00000199620' => 'RNA5SP258',
'ENSG00000221818' => 'EBF2',
'ENSG00000221914' => 'PPP2R2A',
'ENSG00000249213' => 'RP11-98P2.1',
'ENSMUSG00000022052' => 'Ppp2r2a',
'ENSMUSG00000022053' => 'Ebf2',
'ENSMUSG00000075549' => 'Gm6878',
'ENSMUSG00000080432' => 'Gm23178',
'ENSMUSG00000093386' => '1700120O09Rik',
'ENSMUSG00000093472' => '4930438E09Rik',
'ENSMUSG00000093744' => 'Gm20675',
'ENSMUSG00000098365' => 'Gm27647'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0001',
'tax_id' => '9606',
'chromosome' => '8',
'seq_start' => '25894448',
'seq_end' => '26370810',
'region_length' => '476362',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0002',
'tax_id' => '10090',
'chromosome' => '14',
'seq_start' => '67015990',
'seq_end' => '67383923',
'region_length' => '367933',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '70425726',
'seq_end' => '70425853',
'region_length' => '127',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 9 => 'Adrenal',
(int) 20 => 'Bladder',
(int) 28 => 'Brain',
(int) 39 => 'Breast',
(int) 53 => 'Colon',
(int) 62 => 'Heart',
(int) 71 => 'Kidney',
(int) 80 => 'Liver',
(int) 89 => 'Lung',
(int) 101 => 'Muscle',
(int) 109 => 'Ovary',
(int) 124 => 'Placenta',
(int) 138 => '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) 40
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000362750' => array(
'start' => '26136880',
'end' => '26136998',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP258-201'
),
'ENST00000408929' => array(
'start' => '25844362',
'end' => '26041488',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-002'
),
'ENST00000517825' => array(
'start' => '26031450',
'end' => '26045178',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'EBF2-003'
),
'ENST00000520164' => array(
'start' => '25841730',
'end' => '26045397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-001'
),
'ENST00000535548' => array(
'start' => '25844609',
'end' => '25887916',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-201'
),
'ENST00000315985' => array(
'start' => '26293216',
'end' => '26370886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-002'
),
'ENST00000380737' => array(
'start' => '26291491',
'end' => '26372680',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-001'
),
'ENST00000517754' => array(
'start' => '26361090',
'end' => '26371129',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-003'
),
'ENST00000518208' => array(
'start' => '26365098',
'end' => '26370314',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-024'
),
'ENST00000518215' => array(
'start' => '26354419',
'end' => '26370363',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-020'
),
'ENST00000518254' => array(
'start' => '26291528',
'end' => '26354630',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-017'
),
'ENST00000518397' => array(
'start' => '26291614',
'end' => '26361012',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-021'
),
'ENST00000518890' => array(
'start' => '26360600',
'end' => '26370391',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-023'
),
'ENST00000519439' => array(
'start' => '26293572',
'end' => '26361085',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-018'
),
'ENST00000519636' => array(
'start' => '26293216',
'end' => '26360182',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-015'
),
'ENST00000520329' => array(
'start' => '26291528',
'end' => '26360281',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-010'
),
'ENST00000520438' => array(
'start' => '26339919',
'end' => '26360235',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-022'
),
'ENST00000521095' => array(
'start' => '26292119',
'end' => '26354550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-009'
),
'ENST00000521484' => array(
'start' => '26293590',
'end' => '26360238',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-019'
),
'ENST00000521557' => array(
'start' => '26293483',
'end' => '26361033',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-016'
),
'ENST00000522150' => array(
'start' => '26292113',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-007'
),
'ENST00000522482' => array(
'start' => '26293217',
'end' => '26354637',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-014'
),
'ENST00000522535' => array(
'start' => '26291835',
'end' => '26361001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-006'
),
'ENST00000523473' => array(
'start' => '26292117',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-008'
),
'ENST00000523925' => array(
'start' => '26293112',
'end' => '26361007',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-012'
),
'ENST00000523964' => array(
'start' => '26298575',
'end' => '26361044',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-011'
),
'ENST00000524099' => array(
'start' => '26293206',
'end' => '26360237',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-013'
),
'ENST00000524169' => array(
'start' => '26291539',
'end' => '26370324',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-004'
),
'ENST00000512187' => array(
'start' => '26254883',
'end' => '26256628',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-98P2.1-001'
),
'ENSMUST00000089230' => array(
'start' => '67014057',
'end' => '67072471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ppp2r2a-201'
),
'ENSMUST00000022637' => array(
'start' => '67233292',
'end' => '67429777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-001'
),
'ENSMUST00000176029' => array(
'start' => '67234644',
'end' => '67428687',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-004'
),
'ENSMUST00000176161' => array(
'start' => '67233586',
'end' => '67430918',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-003'
),
'ENSMUST00000177231' => array(
'start' => '67233603',
'end' => '67236513',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ebf2-002'
),
'ENSMUST00000100448' => array(
'start' => '67304888',
'end' => '67314711',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm6878-001'
),
'ENSMUST00000116782' => array(
'start' => '67274869',
'end' => '67274963',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm23178-201'
),
'ENSMUST00000177127' => array(
'start' => '67324894',
'end' => '67335928',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700120O09Rik-001'
),
'ENSMUST00000176841' => array(
'start' => '67332042',
'end' => '67397742',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930438E09Rik-001'
),
'ENSMUST00000175861' => array(
'start' => '67232437',
'end' => '67233129',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm20675-001'
),
'ENSMUST00000184709' => array(
'start' => '67074830',
'end' => '67074947',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27647-201'
)
)
$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_0007MZ_0001' => array(
'genes_in_region' => array(
'ENSG00000221818' => array(
[maximum depth reached]
),
'ENSG00000221914' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Placenta',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Ovary',
(int) 9 => 'Placenta',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Lung',
(int) 27 => 'Muscle',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Heart',
(int) 48 => 'Kidney',
(int) 49 => 'Liver',
(int) 50 => 'Lung',
(int) 51 => 'Muscle',
(int) 52 => 'Ovary',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adrenal',
(int) 56 => 'Bladder',
(int) 57 => 'Breast',
(int) 58 => 'Kidney',
(int) 59 => 'Lung',
(int) 60 => 'Muscle',
(int) 61 => 'Ovary',
(int) 62 => 'Kidney',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Heart',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Ovary',
(int) 69 => 'Colon',
(int) 70 => 'Ovary',
(int) 71 => 'Placenta',
(int) 72 => 'Testis',
(int) 73 => 'Bladder',
(int) 74 => 'Ovary',
(int) 75 => 'Placenta',
(int) 76 => 'Testis'
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000022052' => array(
[maximum depth reached]
),
'ENSMUSG00000022053' => array(
[maximum depth reached]
),
'ENSMUSG00000075549' => array(
[maximum depth reached]
),
'ENSMUSG00000093386' => array(
[maximum depth reached]
),
'ENSMUSG00000093472' => array(
[maximum depth reached]
),
'ENSMUSG00000093744' => 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 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Ovary',
(int) 12 => 'Placenta',
(int) 13 => 'Testis',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Bladder',
(int) 44 => 'Breast',
(int) 45 => 'Heart',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Placenta',
(int) 60 => 'Testis',
(int) 61 => 'Adipose',
(int) 62 => 'Brain',
(int) 63 => 'Breast',
(int) 64 => 'Placenta',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Brain',
(int) 69 => 'Breast',
(int) 70 => 'Muscle',
(int) 71 => 'Placenta'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '70425726',
'seq_end' => '70425853',
'region_length' => '127',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
)
$gene_el = array(
'ENSMUST00000175861' => array(
'Adipose' => array(
'average_FPKM' => '0.583',
'stddev_FPKM' => '0.18'
),
'Adrenal' => array(
'average_FPKM' => '0.368',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.128',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.06'
),
'Muscle' => array(
'average_FPKM' => '0.240',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSMUSG00000093744'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.583',
'stddev_FPKM' => '0.18'
),
'Adrenal' => array(
'average_FPKM' => '0.368',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.128',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.06'
),
'Muscle' => array(
'average_FPKM' => '0.240',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSMUST00000175861'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007MZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000199620' => 'RNA, 5S ribosomal pseudogene 258',
'ENSG00000221818' => 'early B-cell factor 2',
'ENSG00000221914' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSG00000249213' => null,
'ENSMUSG00000022052' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSMUSG00000022053' => 'early B cell factor 2',
'ENSMUSG00000075549' => 'predicted gene 6878',
'ENSMUSG00000080432' => 'predicted gene, 23178',
'ENSMUSG00000093386' => 'RIKEN cDNA 1700120O09 gene',
'ENSMUSG00000093472' => 'RIKEN cDNA 4930438E09 gene',
'ENSMUSG00000093744' => 'predicted gene 20675',
'ENSMUSG00000098365' => 'predicted gene, 27647'
),
'gene_name_arr' => array(
'ENSG00000199620' => 'RNA5SP258',
'ENSG00000221818' => 'EBF2',
'ENSG00000221914' => 'PPP2R2A',
'ENSG00000249213' => 'RP11-98P2.1',
'ENSMUSG00000022052' => 'Ppp2r2a',
'ENSMUSG00000022053' => 'Ebf2',
'ENSMUSG00000075549' => 'Gm6878',
'ENSMUSG00000080432' => 'Gm23178',
'ENSMUSG00000093386' => '1700120O09Rik',
'ENSMUSG00000093472' => '4930438E09Rik',
'ENSMUSG00000093744' => 'Gm20675',
'ENSMUSG00000098365' => 'Gm27647'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 9 => 'Adrenal',
(int) 20 => 'Bladder',
(int) 28 => 'Brain',
(int) 39 => 'Breast',
(int) 53 => 'Colon',
(int) 62 => 'Heart',
(int) 71 => 'Kidney',
(int) 80 => 'Liver',
(int) 89 => 'Lung',
(int) 101 => 'Muscle',
(int) 109 => 'Ovary',
(int) 124 => 'Placenta',
(int) 138 => '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) 40,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000362750' => array(
'start' => '26136880',
'end' => '26136998',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP258-201'
),
'ENST00000408929' => array(
'start' => '25844362',
'end' => '26041488',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-002'
),
'ENST00000517825' => array(
'start' => '26031450',
'end' => '26045178',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'EBF2-003'
),
'ENST00000520164' => array(
'start' => '25841730',
'end' => '26045397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-001'
),
'ENST00000535548' => array(
'start' => '25844609',
'end' => '25887916',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-201'
),
'ENST00000315985' => array(
'start' => '26293216',
'end' => '26370886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-002'
),
'ENST00000380737' => array(
'start' => '26291491',
'end' => '26372680',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-001'
),
'ENST00000517754' => array(
'start' => '26361090',
'end' => '26371129',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-003'
),
'ENST00000518208' => array(
'start' => '26365098',
'end' => '26370314',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-024'
),
'ENST00000518215' => array(
'start' => '26354419',
'end' => '26370363',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-020'
),
'ENST00000518254' => array(
'start' => '26291528',
'end' => '26354630',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-017'
),
'ENST00000518397' => array(
'start' => '26291614',
'end' => '26361012',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-021'
),
'ENST00000518890' => array(
'start' => '26360600',
'end' => '26370391',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-023'
),
'ENST00000519439' => array(
'start' => '26293572',
'end' => '26361085',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-018'
),
'ENST00000519636' => array(
'start' => '26293216',
'end' => '26360182',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-015'
),
'ENST00000520329' => array(
'start' => '26291528',
'end' => '26360281',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-010'
),
'ENST00000520438' => array(
'start' => '26339919',
'end' => '26360235',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-022'
),
'ENST00000521095' => array(
'start' => '26292119',
'end' => '26354550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-009'
),
'ENST00000521484' => array(
'start' => '26293590',
'end' => '26360238',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-019'
),
'ENST00000521557' => array(
'start' => '26293483',
'end' => '26361033',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-016'
),
'ENST00000522150' => array(
'start' => '26292113',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-007'
),
'ENST00000522482' => array(
'start' => '26293217',
'end' => '26354637',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-014'
),
'ENST00000522535' => array(
'start' => '26291835',
'end' => '26361001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-006'
),
'ENST00000523473' => array(
'start' => '26292117',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-008'
),
'ENST00000523925' => array(
'start' => '26293112',
'end' => '26361007',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-012'
),
'ENST00000523964' => array(
'start' => '26298575',
'end' => '26361044',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-011'
),
'ENST00000524099' => array(
'start' => '26293206',
'end' => '26360237',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-013'
),
'ENST00000524169' => array(
'start' => '26291539',
'end' => '26370324',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-004'
),
'ENST00000512187' => array(
'start' => '26254883',
'end' => '26256628',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-98P2.1-001'
),
'ENSMUST00000089230' => array(
'start' => '67014057',
'end' => '67072471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ppp2r2a-201'
),
'ENSMUST00000022637' => array(
'start' => '67233292',
'end' => '67429777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-001'
),
'ENSMUST00000176029' => array(
'start' => '67234644',
'end' => '67428687',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-004'
),
'ENSMUST00000176161' => array(
'start' => '67233586',
'end' => '67430918',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-003'
),
'ENSMUST00000177231' => array(
'start' => '67233603',
'end' => '67236513',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ebf2-002'
),
'ENSMUST00000100448' => array(
'start' => '67304888',
'end' => '67314711',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm6878-001'
),
'ENSMUST00000116782' => array(
'start' => '67274869',
'end' => '67274963',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm23178-201'
),
'ENSMUST00000177127' => array(
'start' => '67324894',
'end' => '67335928',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700120O09Rik-001'
),
'ENSMUST00000176841' => array(
'start' => '67332042',
'end' => '67397742',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930438E09Rik-001'
),
'ENSMUST00000175861' => array(
'start' => '67232437',
'end' => '67233129',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm20675-001'
),
'ENSMUST00000184709' => array(
'start' => '67074830',
'end' => '67074947',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27647-201'
)
),
'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_0007MZ_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007MZ_0001' => array(
'genes_in_region' => array(
'ENSG00000221818' => array(
[maximum depth reached]
),
'ENSG00000221914' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Placenta',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Ovary',
(int) 9 => 'Placenta',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Lung',
(int) 27 => 'Muscle',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Heart',
(int) 48 => 'Kidney',
(int) 49 => 'Liver',
(int) 50 => 'Lung',
(int) 51 => 'Muscle',
(int) 52 => 'Ovary',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adrenal',
(int) 56 => 'Bladder',
(int) 57 => 'Breast',
(int) 58 => 'Kidney',
(int) 59 => 'Lung',
(int) 60 => 'Muscle',
(int) 61 => 'Ovary',
(int) 62 => 'Kidney',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Heart',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Ovary',
(int) 69 => 'Colon',
(int) 70 => 'Ovary',
(int) 71 => 'Placenta',
(int) 72 => 'Testis',
(int) 73 => 'Bladder',
(int) 74 => 'Ovary',
(int) 75 => 'Placenta',
(int) 76 => 'Testis'
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000022052' => array(
[maximum depth reached]
),
'ENSMUSG00000022053' => array(
[maximum depth reached]
),
'ENSMUSG00000075549' => array(
[maximum depth reached]
),
'ENSMUSG00000093386' => array(
[maximum depth reached]
),
'ENSMUSG00000093472' => array(
[maximum depth reached]
),
'ENSMUSG00000093744' => 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 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Ovary',
(int) 12 => 'Placenta',
(int) 13 => 'Testis',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Bladder',
(int) 44 => 'Breast',
(int) 45 => 'Heart',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Placenta',
(int) 60 => 'Testis',
(int) 61 => 'Adipose',
(int) 62 => 'Brain',
(int) 63 => 'Breast',
(int) 64 => 'Placenta',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Brain',
(int) 69 => 'Breast',
(int) 70 => 'Muscle',
(int) 71 => 'Placenta'
)
)
)
$gene_desc_arr = array(
'ENSG00000199620' => 'RNA, 5S ribosomal pseudogene 258',
'ENSG00000221818' => 'early B-cell factor 2',
'ENSG00000221914' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSG00000249213' => null,
'ENSMUSG00000022052' => 'protein phosphatase 2, regulatory subunit B, alpha',
'ENSMUSG00000022053' => 'early B cell factor 2',
'ENSMUSG00000075549' => 'predicted gene 6878',
'ENSMUSG00000080432' => 'predicted gene, 23178',
'ENSMUSG00000093386' => 'RIKEN cDNA 1700120O09 gene',
'ENSMUSG00000093472' => 'RIKEN cDNA 4930438E09 gene',
'ENSMUSG00000093744' => 'predicted gene 20675',
'ENSMUSG00000098365' => 'predicted gene, 27647'
)
$gene_name_arr = array(
'ENSG00000199620' => 'RNA5SP258',
'ENSG00000221818' => 'EBF2',
'ENSG00000221914' => 'PPP2R2A',
'ENSG00000249213' => 'RP11-98P2.1',
'ENSMUSG00000022052' => 'Ppp2r2a',
'ENSMUSG00000022053' => 'Ebf2',
'ENSMUSG00000075549' => 'Gm6878',
'ENSMUSG00000080432' => 'Gm23178',
'ENSMUSG00000093386' => '1700120O09Rik',
'ENSMUSG00000093472' => '4930438E09Rik',
'ENSMUSG00000093744' => 'Gm20675',
'ENSMUSG00000098365' => 'Gm27647'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0001',
'tax_id' => '9606',
'chromosome' => '8',
'seq_start' => '25894448',
'seq_end' => '26370810',
'region_length' => '476362',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0002',
'tax_id' => '10090',
'chromosome' => '14',
'seq_start' => '67015990',
'seq_end' => '67383923',
'region_length' => '367933',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '70425726',
'seq_end' => '70425853',
'region_length' => '127',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 9 => 'Adrenal',
(int) 20 => 'Bladder',
(int) 28 => 'Brain',
(int) 39 => 'Breast',
(int) 53 => 'Colon',
(int) 62 => 'Heart',
(int) 71 => 'Kidney',
(int) 80 => 'Liver',
(int) 89 => 'Lung',
(int) 101 => 'Muscle',
(int) 109 => 'Ovary',
(int) 124 => 'Placenta',
(int) 138 => '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) 40
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000362750' => array(
'start' => '26136880',
'end' => '26136998',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP258-201'
),
'ENST00000408929' => array(
'start' => '25844362',
'end' => '26041488',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-002'
),
'ENST00000517825' => array(
'start' => '26031450',
'end' => '26045178',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'EBF2-003'
),
'ENST00000520164' => array(
'start' => '25841730',
'end' => '26045397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-001'
),
'ENST00000535548' => array(
'start' => '25844609',
'end' => '25887916',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'EBF2-201'
),
'ENST00000315985' => array(
'start' => '26293216',
'end' => '26370886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-002'
),
'ENST00000380737' => array(
'start' => '26291491',
'end' => '26372680',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-001'
),
'ENST00000517754' => array(
'start' => '26361090',
'end' => '26371129',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-003'
),
'ENST00000518208' => array(
'start' => '26365098',
'end' => '26370314',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-024'
),
'ENST00000518215' => array(
'start' => '26354419',
'end' => '26370363',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-020'
),
'ENST00000518254' => array(
'start' => '26291528',
'end' => '26354630',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-017'
),
'ENST00000518397' => array(
'start' => '26291614',
'end' => '26361012',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-021'
),
'ENST00000518890' => array(
'start' => '26360600',
'end' => '26370391',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-023'
),
'ENST00000519439' => array(
'start' => '26293572',
'end' => '26361085',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-018'
),
'ENST00000519636' => array(
'start' => '26293216',
'end' => '26360182',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-015'
),
'ENST00000520329' => array(
'start' => '26291528',
'end' => '26360281',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PPP2R2A-010'
),
'ENST00000520438' => array(
'start' => '26339919',
'end' => '26360235',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-022'
),
'ENST00000521095' => array(
'start' => '26292119',
'end' => '26354550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-009'
),
'ENST00000521484' => array(
'start' => '26293590',
'end' => '26360238',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PPP2R2A-019'
),
'ENST00000521557' => array(
'start' => '26293483',
'end' => '26361033',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-016'
),
'ENST00000522150' => array(
'start' => '26292113',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-007'
),
'ENST00000522482' => array(
'start' => '26293217',
'end' => '26354637',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-014'
),
'ENST00000522535' => array(
'start' => '26291835',
'end' => '26361001',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-006'
),
'ENST00000523473' => array(
'start' => '26292117',
'end' => '26339973',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-008'
),
'ENST00000523925' => array(
'start' => '26293112',
'end' => '26361007',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-012'
),
'ENST00000523964' => array(
'start' => '26298575',
'end' => '26361044',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-011'
),
'ENST00000524099' => array(
'start' => '26293206',
'end' => '26360237',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PPP2R2A-013'
),
'ENST00000524169' => array(
'start' => '26291539',
'end' => '26370324',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PPP2R2A-004'
),
'ENST00000512187' => array(
'start' => '26254883',
'end' => '26256628',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-98P2.1-001'
),
'ENSMUST00000089230' => array(
'start' => '67014057',
'end' => '67072471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ppp2r2a-201'
),
'ENSMUST00000022637' => array(
'start' => '67233292',
'end' => '67429777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-001'
),
'ENSMUST00000176029' => array(
'start' => '67234644',
'end' => '67428687',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-004'
),
'ENSMUST00000176161' => array(
'start' => '67233586',
'end' => '67430918',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ebf2-003'
),
'ENSMUST00000177231' => array(
'start' => '67233603',
'end' => '67236513',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Ebf2-002'
),
'ENSMUST00000100448' => array(
'start' => '67304888',
'end' => '67314711',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm6878-001'
),
'ENSMUST00000116782' => array(
'start' => '67274869',
'end' => '67274963',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm23178-201'
),
'ENSMUST00000177127' => array(
'start' => '67324894',
'end' => '67335928',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700120O09Rik-001'
),
'ENSMUST00000176841' => array(
'start' => '67332042',
'end' => '67397742',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '4930438E09Rik-001'
),
'ENSMUST00000175861' => array(
'start' => '67232437',
'end' => '67233129',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm20675-001'
),
'ENSMUST00000184709' => array(
'start' => '67074830',
'end' => '67074947',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm27647-201'
)
)
$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_0007MZ_0001' => array(
'genes_in_region' => array(
'ENSG00000221818' => array(
[maximum depth reached]
),
'ENSG00000221914' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Breast',
(int) 2 => 'Ovary',
(int) 3 => 'Placenta',
(int) 4 => 'Breast',
(int) 5 => 'Colon',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Ovary',
(int) 9 => 'Placenta',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Lung',
(int) 27 => 'Muscle',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Bladder',
(int) 31 => 'Brain',
(int) 32 => 'Breast',
(int) 33 => 'Colon',
(int) 34 => 'Heart',
(int) 35 => 'Kidney',
(int) 36 => 'Liver',
(int) 37 => 'Lung',
(int) 38 => 'Muscle',
(int) 39 => 'Ovary',
(int) 40 => 'Placenta',
(int) 41 => 'Testis',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Breast',
(int) 46 => 'Colon',
(int) 47 => 'Heart',
(int) 48 => 'Kidney',
(int) 49 => 'Liver',
(int) 50 => 'Lung',
(int) 51 => 'Muscle',
(int) 52 => 'Ovary',
(int) 53 => 'Placenta',
(int) 54 => 'Testis',
(int) 55 => 'Adrenal',
(int) 56 => 'Bladder',
(int) 57 => 'Breast',
(int) 58 => 'Kidney',
(int) 59 => 'Lung',
(int) 60 => 'Muscle',
(int) 61 => 'Ovary',
(int) 62 => 'Kidney',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Heart',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Ovary',
(int) 69 => 'Colon',
(int) 70 => 'Ovary',
(int) 71 => 'Placenta',
(int) 72 => 'Testis',
(int) 73 => 'Bladder',
(int) 74 => 'Ovary',
(int) 75 => 'Placenta',
(int) 76 => 'Testis'
)
),
'CIL_0007MZ_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000022052' => array(
[maximum depth reached]
),
'ENSMUSG00000022053' => array(
[maximum depth reached]
),
'ENSMUSG00000075549' => array(
[maximum depth reached]
),
'ENSMUSG00000093386' => array(
[maximum depth reached]
),
'ENSMUSG00000093472' => array(
[maximum depth reached]
),
'ENSMUSG00000093744' => 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 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Ovary',
(int) 12 => 'Placenta',
(int) 13 => 'Testis',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Adipose',
(int) 20 => 'Adrenal',
(int) 21 => 'Breast',
(int) 22 => 'Colon',
(int) 23 => 'Heart',
(int) 24 => 'Kidney',
(int) 25 => 'Lung',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Colon',
(int) 32 => 'Heart',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Bladder',
(int) 44 => 'Breast',
(int) 45 => 'Heart',
(int) 46 => 'Kidney',
(int) 47 => 'Liver',
(int) 48 => 'Ovary',
(int) 49 => 'Placenta',
(int) 50 => 'Testis',
(int) 51 => 'Adipose',
(int) 52 => 'Adrenal',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Placenta',
(int) 60 => 'Testis',
(int) 61 => 'Adipose',
(int) 62 => 'Brain',
(int) 63 => 'Breast',
(int) 64 => 'Placenta',
(int) 65 => 'Testis',
(int) 66 => 'Adipose',
(int) 67 => 'Adrenal',
(int) 68 => 'Brain',
(int) 69 => 'Breast',
(int) 70 => 'Muscle',
(int) 71 => 'Placenta'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MZ_0003',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '70425726',
'seq_end' => '70425853',
'region_length' => '127',
'region_type' => 'UCNEbase',
'el_id' => 'EBF2'
)
)
$gene_el = array(
'ENSMUST00000175861' => array(
'Adipose' => array(
'average_FPKM' => '0.583',
'stddev_FPKM' => '0.18'
),
'Adrenal' => array(
'average_FPKM' => '0.368',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.128',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.06'
),
'Muscle' => array(
'average_FPKM' => '0.240',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSMUSG00000093744'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.583',
'stddev_FPKM' => '0.18'
),
'Adrenal' => array(
'average_FPKM' => '0.368',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.128',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.366',
'stddev_FPKM' => '0.06'
),
'Muscle' => array(
'average_FPKM' => '0.240',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.030',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSMUST00000175861'
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
(EBF2)