| Source ID |
Type |
Tax ID |
Position |
| MYT1L |
UCNEbase |
7955 |
24:36639866-36639950  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007KG_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_0007KG_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000186487' => 'myelin transcription factor 1-like',
'ENSG00000225619' => 'MYT1L antisense RNA 1',
'ENSG00000232057' => null,
'ENSMUSG00000061911' => 'myelin transcription factor 1-like',
'ENSDARG00000006212' => 'myelin transcription factor 1-like',
'ENSDARG00000008209' => 'myelin transcription factor 1-like, a'
),
'gene_name_arr' => array(
'ENSG00000186487' => 'MYT1L',
'ENSG00000225619' => 'MYT1L-AS1',
'ENSG00000232057' => 'AC093390.1',
'ENSMUSG00000061911' => 'Myt1l',
'ENSDARG00000006212' => 'MYT1L (1 of 2)',
'ENSDARG00000008209' => 'myt1la'
),
'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) 3 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 11 => 'Brain',
(int) 18 => 'Breast',
(int) 22 => 'Colon',
(int) 28 => 'Heart',
(int) 35 => 'Kidney',
(int) 40 => 'Liver',
(int) 47 => 'Lung',
(int) 51 => 'Muscle',
(int) 56 => 'Ovary',
(int) 60 => 'Placenta',
(int) 66 => '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) 22,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000399157' => array(
'start' => '1791175',
'end' => '1840779',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-012'
),
'ENST00000399161' => array(
'start' => '1789113',
'end' => '2331194',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-001'
),
'ENST00000407844' => array(
'start' => '1789136',
'end' => '1842886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-002'
),
'ENST00000428368' => array(
'start' => '1791242',
'end' => '2331116',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-013'
),
'ENST00000460585' => array(
'start' => '2303483',
'end' => '2331260',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-008'
),
'ENST00000470954' => array(
'start' => '1885183',
'end' => '1887505',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-006'
),
'ENST00000471668' => array(
'start' => '1816181',
'end' => '1842907',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-003'
),
'ENST00000476547' => array(
'start' => '2284477',
'end' => '2326554',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-009'
),
'ENST00000479156' => array(
'start' => '1997283',
'end' => '2324535',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-010'
),
'ENST00000485348' => array(
'start' => '1974415',
'end' => '1979550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-007'
),
'ENST00000485547' => array(
'start' => '1902725',
'end' => '1912075',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-011'
),
'ENST00000490585' => array(
'start' => '1886186',
'end' => '1903127',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-005'
),
'ENST00000602387' => array(
'start' => '1883877',
'end' => '1922730',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYT1L-014'
),
'ENST00000422175' => array(
'start' => '2319232',
'end' => '2327110',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-002'
),
'ENST00000448106' => array(
'start' => '2319244',
'end' => '2327108',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-001'
),
'ENST00000426976' => array(
'start' => '1824412',
'end' => '1828667',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC093390.1-001'
),
'ENSMUST00000021009' => array(
'start' => '29534905',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-201'
),
'ENSMUST00000049784' => array(
'start' => '29528384',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-202'
),
'ENSDART00000047089' => array(
'start' => '51997281',
'end' => '52039345',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L (1 of 2)-201'
),
'ENSDART00000044397' => array(
'start' => '30513461',
'end' => '30599922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-201'
),
'ENSDART00000129169' => array(
'start' => '30516590',
'end' => '30602466',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-202'
),
'ENSDART00000153150' => array(
'start' => '30471879',
'end' => '30599937',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
'ENSG00000186487' => array(
[maximum depth reached]
),
'ENSG00000225619' => array(
[maximum depth reached]
),
'ENSG00000232057' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Brain',
(int) 2 => 'Colon',
(int) 3 => 'Placenta',
(int) 4 => 'Testis',
(int) 5 => 'Adrenal',
(int) 6 => 'Breast',
(int) 7 => 'Colon',
(int) 8 => 'Lung',
(int) 9 => 'Placenta',
(int) 10 => 'Testis',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Testis',
(int) 15 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Breast',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta',
(int) 25 => 'Colon',
(int) 26 => 'Testis',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis'
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000061911' => 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 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adrenal',
(int) 14 => 'Brain',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta'
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
'ENSDARG00000006212' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle'
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
'ENSDARG00000008209' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000186487' => 'myelin transcription factor 1-like',
'ENSG00000225619' => 'MYT1L antisense RNA 1',
'ENSG00000232057' => null,
'ENSMUSG00000061911' => 'myelin transcription factor 1-like',
'ENSDARG00000006212' => 'myelin transcription factor 1-like',
'ENSDARG00000008209' => 'myelin transcription factor 1-like, a'
)
$gene_name_arr = array(
'ENSG00000186487' => 'MYT1L',
'ENSG00000225619' => 'MYT1L-AS1',
'ENSG00000232057' => 'AC093390.1',
'ENSMUSG00000061911' => 'Myt1l',
'ENSDARG00000006212' => 'MYT1L (1 of 2)',
'ENSDARG00000008209' => 'myt1la'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '1789125',
'seq_end' => '2331709',
'region_length' => '542584',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '29528060',
'seq_end' => '29923205',
'region_length' => '395145',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0003',
'tax_id' => '7955',
'chromosome' => '17',
'seq_start' => '51870919',
'seq_end' => '52042191',
'region_length' => '171272',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '30468955',
'seq_end' => '30602470',
'region_length' => '133515',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0005',
'tax_id' => '7955',
'chromosome' => '24',
'seq_start' => '36639866',
'seq_end' => '36639950',
'region_length' => '84',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 11 => 'Brain',
(int) 18 => 'Breast',
(int) 22 => 'Colon',
(int) 28 => 'Heart',
(int) 35 => 'Kidney',
(int) 40 => 'Liver',
(int) 47 => 'Lung',
(int) 51 => 'Muscle',
(int) 56 => 'Ovary',
(int) 60 => 'Placenta',
(int) 66 => '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) 22
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000399157' => array(
'start' => '1791175',
'end' => '1840779',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-012'
),
'ENST00000399161' => array(
'start' => '1789113',
'end' => '2331194',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-001'
),
'ENST00000407844' => array(
'start' => '1789136',
'end' => '1842886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-002'
),
'ENST00000428368' => array(
'start' => '1791242',
'end' => '2331116',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-013'
),
'ENST00000460585' => array(
'start' => '2303483',
'end' => '2331260',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-008'
),
'ENST00000470954' => array(
'start' => '1885183',
'end' => '1887505',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-006'
),
'ENST00000471668' => array(
'start' => '1816181',
'end' => '1842907',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-003'
),
'ENST00000476547' => array(
'start' => '2284477',
'end' => '2326554',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-009'
),
'ENST00000479156' => array(
'start' => '1997283',
'end' => '2324535',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-010'
),
'ENST00000485348' => array(
'start' => '1974415',
'end' => '1979550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-007'
),
'ENST00000485547' => array(
'start' => '1902725',
'end' => '1912075',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-011'
),
'ENST00000490585' => array(
'start' => '1886186',
'end' => '1903127',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-005'
),
'ENST00000602387' => array(
'start' => '1883877',
'end' => '1922730',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYT1L-014'
),
'ENST00000422175' => array(
'start' => '2319232',
'end' => '2327110',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-002'
),
'ENST00000448106' => array(
'start' => '2319244',
'end' => '2327108',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-001'
),
'ENST00000426976' => array(
'start' => '1824412',
'end' => '1828667',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC093390.1-001'
),
'ENSMUST00000021009' => array(
'start' => '29534905',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-201'
),
'ENSMUST00000049784' => array(
'start' => '29528384',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-202'
),
'ENSDART00000047089' => array(
'start' => '51997281',
'end' => '52039345',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L (1 of 2)-201'
),
'ENSDART00000044397' => array(
'start' => '30513461',
'end' => '30599922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-201'
),
'ENSDART00000129169' => array(
'start' => '30516590',
'end' => '30602466',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-202'
),
'ENSDART00000153150' => array(
'start' => '30471879',
'end' => '30599937',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
'ENSG00000186487' => array(
[maximum depth reached]
),
'ENSG00000225619' => array(
[maximum depth reached]
),
'ENSG00000232057' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Brain',
(int) 2 => 'Colon',
(int) 3 => 'Placenta',
(int) 4 => 'Testis',
(int) 5 => 'Adrenal',
(int) 6 => 'Breast',
(int) 7 => 'Colon',
(int) 8 => 'Lung',
(int) 9 => 'Placenta',
(int) 10 => 'Testis',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Testis',
(int) 15 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Breast',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta',
(int) 25 => 'Colon',
(int) 26 => 'Testis',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis'
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000061911' => 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 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adrenal',
(int) 14 => 'Brain',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta'
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
'ENSDARG00000006212' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle'
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
'ENSDARG00000008209' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0005',
'tax_id' => '7955',
'chromosome' => '24',
'seq_start' => '36639866',
'seq_end' => '36639950',
'region_length' => '84',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
)
$gene_el = array(
'ENSDART00000044397' => array(
'Heart' => array(
'average_FPKM' => '0.034',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.054',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.455',
'stddev_FPKM' => '0.00'
)
),
'ENSDART00000129169' => array(
'Brain' => array(
'average_FPKM' => '25.124',
'stddev_FPKM' => '14.29'
),
'Heart' => array(
'average_FPKM' => '0.041',
'stddev_FPKM' => '0.01'
),
'Kidney' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.02'
),
'Muscle' => array(
'average_FPKM' => '0.537',
'stddev_FPKM' => '0.00'
)
),
'ENSDART00000153150' => array()
)
$gene_key = 'ENSDARG00000008209'
$is_first = false
$tran_el = array()
$tran_key = 'ENSDART00000153150'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007KG_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000186487' => 'myelin transcription factor 1-like',
'ENSG00000225619' => 'MYT1L antisense RNA 1',
'ENSG00000232057' => null,
'ENSMUSG00000061911' => 'myelin transcription factor 1-like',
'ENSDARG00000006212' => 'myelin transcription factor 1-like',
'ENSDARG00000008209' => 'myelin transcription factor 1-like, a'
),
'gene_name_arr' => array(
'ENSG00000186487' => 'MYT1L',
'ENSG00000225619' => 'MYT1L-AS1',
'ENSG00000232057' => 'AC093390.1',
'ENSMUSG00000061911' => 'Myt1l',
'ENSDARG00000006212' => 'MYT1L (1 of 2)',
'ENSDARG00000008209' => 'myt1la'
),
'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) 3 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 11 => 'Brain',
(int) 18 => 'Breast',
(int) 22 => 'Colon',
(int) 28 => 'Heart',
(int) 35 => 'Kidney',
(int) 40 => 'Liver',
(int) 47 => 'Lung',
(int) 51 => 'Muscle',
(int) 56 => 'Ovary',
(int) 60 => 'Placenta',
(int) 66 => '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) 22,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000399157' => array(
'start' => '1791175',
'end' => '1840779',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-012'
),
'ENST00000399161' => array(
'start' => '1789113',
'end' => '2331194',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-001'
),
'ENST00000407844' => array(
'start' => '1789136',
'end' => '1842886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-002'
),
'ENST00000428368' => array(
'start' => '1791242',
'end' => '2331116',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-013'
),
'ENST00000460585' => array(
'start' => '2303483',
'end' => '2331260',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-008'
),
'ENST00000470954' => array(
'start' => '1885183',
'end' => '1887505',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-006'
),
'ENST00000471668' => array(
'start' => '1816181',
'end' => '1842907',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-003'
),
'ENST00000476547' => array(
'start' => '2284477',
'end' => '2326554',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-009'
),
'ENST00000479156' => array(
'start' => '1997283',
'end' => '2324535',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-010'
),
'ENST00000485348' => array(
'start' => '1974415',
'end' => '1979550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-007'
),
'ENST00000485547' => array(
'start' => '1902725',
'end' => '1912075',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-011'
),
'ENST00000490585' => array(
'start' => '1886186',
'end' => '1903127',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-005'
),
'ENST00000602387' => array(
'start' => '1883877',
'end' => '1922730',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYT1L-014'
),
'ENST00000422175' => array(
'start' => '2319232',
'end' => '2327110',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-002'
),
'ENST00000448106' => array(
'start' => '2319244',
'end' => '2327108',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-001'
),
'ENST00000426976' => array(
'start' => '1824412',
'end' => '1828667',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC093390.1-001'
),
'ENSMUST00000021009' => array(
'start' => '29534905',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-201'
),
'ENSMUST00000049784' => array(
'start' => '29528384',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-202'
),
'ENSDART00000047089' => array(
'start' => '51997281',
'end' => '52039345',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L (1 of 2)-201'
),
'ENSDART00000044397' => array(
'start' => '30513461',
'end' => '30599922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-201'
),
'ENSDART00000129169' => array(
'start' => '30516590',
'end' => '30602466',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-202'
),
'ENSDART00000153150' => array(
'start' => '30471879',
'end' => '30599937',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
'ENSG00000186487' => array(
[maximum depth reached]
),
'ENSG00000225619' => array(
[maximum depth reached]
),
'ENSG00000232057' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Brain',
(int) 2 => 'Colon',
(int) 3 => 'Placenta',
(int) 4 => 'Testis',
(int) 5 => 'Adrenal',
(int) 6 => 'Breast',
(int) 7 => 'Colon',
(int) 8 => 'Lung',
(int) 9 => 'Placenta',
(int) 10 => 'Testis',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Testis',
(int) 15 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Breast',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta',
(int) 25 => 'Colon',
(int) 26 => 'Testis',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis'
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000061911' => 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 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adrenal',
(int) 14 => 'Brain',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta'
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
'ENSDARG00000006212' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle'
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
'ENSDARG00000008209' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000186487' => 'myelin transcription factor 1-like',
'ENSG00000225619' => 'MYT1L antisense RNA 1',
'ENSG00000232057' => null,
'ENSMUSG00000061911' => 'myelin transcription factor 1-like',
'ENSDARG00000006212' => 'myelin transcription factor 1-like',
'ENSDARG00000008209' => 'myelin transcription factor 1-like, a'
)
$gene_name_arr = array(
'ENSG00000186487' => 'MYT1L',
'ENSG00000225619' => 'MYT1L-AS1',
'ENSG00000232057' => 'AC093390.1',
'ENSMUSG00000061911' => 'Myt1l',
'ENSDARG00000006212' => 'MYT1L (1 of 2)',
'ENSDARG00000008209' => 'myt1la'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0001',
'tax_id' => '9606',
'chromosome' => '2',
'seq_start' => '1789125',
'seq_end' => '2331709',
'region_length' => '542584',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '29528060',
'seq_end' => '29923205',
'region_length' => '395145',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0003',
'tax_id' => '7955',
'chromosome' => '17',
'seq_start' => '51870919',
'seq_end' => '52042191',
'region_length' => '171272',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0004',
'tax_id' => '7955',
'chromosome' => '20',
'seq_start' => '30468955',
'seq_end' => '30602470',
'region_length' => '133515',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0005',
'tax_id' => '7955',
'chromosome' => '24',
'seq_start' => '36639866',
'seq_end' => '36639950',
'region_length' => '84',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 9 => 'Bladder',
(int) 11 => 'Brain',
(int) 18 => 'Breast',
(int) 22 => 'Colon',
(int) 28 => 'Heart',
(int) 35 => 'Kidney',
(int) 40 => 'Liver',
(int) 47 => 'Lung',
(int) 51 => 'Muscle',
(int) 56 => 'Ovary',
(int) 60 => 'Placenta',
(int) 66 => '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) 22
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000399157' => array(
'start' => '1791175',
'end' => '1840779',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-012'
),
'ENST00000399161' => array(
'start' => '1789113',
'end' => '2331194',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-001'
),
'ENST00000407844' => array(
'start' => '1789136',
'end' => '1842886',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-002'
),
'ENST00000428368' => array(
'start' => '1791242',
'end' => '2331116',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L-013'
),
'ENST00000460585' => array(
'start' => '2303483',
'end' => '2331260',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-008'
),
'ENST00000470954' => array(
'start' => '1885183',
'end' => '1887505',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-006'
),
'ENST00000471668' => array(
'start' => '1816181',
'end' => '1842907',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-003'
),
'ENST00000476547' => array(
'start' => '2284477',
'end' => '2326554',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-009'
),
'ENST00000479156' => array(
'start' => '1997283',
'end' => '2324535',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-010'
),
'ENST00000485348' => array(
'start' => '1974415',
'end' => '1979550',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYT1L-007'
),
'ENST00000485547' => array(
'start' => '1902725',
'end' => '1912075',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-011'
),
'ENST00000490585' => array(
'start' => '1886186',
'end' => '1903127',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYT1L-005'
),
'ENST00000602387' => array(
'start' => '1883877',
'end' => '1922730',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYT1L-014'
),
'ENST00000422175' => array(
'start' => '2319232',
'end' => '2327110',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-002'
),
'ENST00000448106' => array(
'start' => '2319244',
'end' => '2327108',
'transcript_biotype' => 'antisense',
'transcript_name' => 'MYT1L-AS1-001'
),
'ENST00000426976' => array(
'start' => '1824412',
'end' => '1828667',
'transcript_biotype' => 'antisense',
'transcript_name' => 'AC093390.1-001'
),
'ENSMUST00000021009' => array(
'start' => '29534905',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-201'
),
'ENSMUST00000049784' => array(
'start' => '29528384',
'end' => '29923209',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myt1l-202'
),
'ENSDART00000047089' => array(
'start' => '51997281',
'end' => '52039345',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYT1L (1 of 2)-201'
),
'ENSDART00000044397' => array(
'start' => '30513461',
'end' => '30599922',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-201'
),
'ENSDART00000129169' => array(
'start' => '30516590',
'end' => '30602466',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-202'
),
'ENSDART00000153150' => array(
'start' => '30471879',
'end' => '30599937',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myt1la-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007KG_0001' => array(
'genes_in_region' => array(
'ENSG00000186487' => array(
[maximum depth reached]
),
'ENSG00000225619' => array(
[maximum depth reached]
),
'ENSG00000232057' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Brain',
(int) 2 => 'Colon',
(int) 3 => 'Placenta',
(int) 4 => 'Testis',
(int) 5 => 'Adrenal',
(int) 6 => 'Breast',
(int) 7 => 'Colon',
(int) 8 => 'Lung',
(int) 9 => 'Placenta',
(int) 10 => 'Testis',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Testis',
(int) 15 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Breast',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta',
(int) 25 => 'Colon',
(int) 26 => 'Testis',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis'
)
),
'CIL_0007KG_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000061911' => 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 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adrenal',
(int) 14 => 'Brain',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Ovary',
(int) 18 => 'Placenta'
)
),
'CIL_0007KG_0003' => array(
'genes_in_region' => array(
'ENSDARG00000006212' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle'
)
),
'CIL_0007KG_0004' => array(
'genes_in_region' => array(
'ENSDARG00000008209' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007KG_0005',
'tax_id' => '7955',
'chromosome' => '24',
'seq_start' => '36639866',
'seq_end' => '36639950',
'region_length' => '84',
'region_type' => 'UCNEbase',
'el_id' => 'MYT1L'
)
)
$gene_el = array(
'ENSDART00000044397' => array(
'Heart' => array(
'average_FPKM' => '0.034',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.054',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.014',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.455',
'stddev_FPKM' => '0.00'
)
),
'ENSDART00000129169' => array(
'Brain' => array(
'average_FPKM' => '25.124',
'stddev_FPKM' => '14.29'
),
'Heart' => array(
'average_FPKM' => '0.041',
'stddev_FPKM' => '0.01'
),
'Kidney' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.02'
),
'Muscle' => array(
'average_FPKM' => '0.537',
'stddev_FPKM' => '0.00'
)
),
'ENSDART00000153150' => array()
)
$gene_key = 'ENSDARG00000008209'
$is_first = false
$tran_el = array()
$tran_key = 'ENSDART00000153150'
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
(MYT1L)