| Source ID |
Type |
Tax ID |
Position |
| ENSG00000244005-ENSG00000125995 |
CGP |
9606 |
20:35668055-35700984  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_000135_0001 [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_000135_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000125995' => 'reactive oxygen species modulator 1',
'ENSG00000244005' => 'NFS1 cysteine desulfurase',
'ENSG00000272897' => null,
'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
'ENSMUSG00000098950' => 'predicted gene, 28036'
),
'gene_name_arr' => array(
'ENSG00000125995' => 'ROMO1',
'ENSG00000244005' => 'NFS1',
'ENSG00000272897' => 'RP1-309K20.6',
'ENSMUSG00000027618' => 'Nfs1',
'ENSMUSG00000067847' => 'Romo1',
'ENSMUSG00000098950' => 'Gm28036'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 5 => 'Bladder',
(int) 7 => 'Brain',
(int) 12 => 'Breast',
(int) 14 => 'Colon',
(int) 16 => 'Heart',
(int) 19 => 'Kidney',
(int) 23 => 'Liver',
(int) 26 => 'Lung',
(int) 28 => 'Muscle',
(int) 32 => 'Ovary',
(int) 36 => 'Placenta',
(int) 39 => 'Testis'
),
'column_titles' => array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
),
'geneviewer' => array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
),
'transcript_count' => (int) 38,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000336695' => array(
'start' => '35699451',
'end' => '35700980',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-002'
),
'ENST00000374072' => array(
'start' => '35699442',
'end' => '35700978',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-004'
),
'ENST00000374077' => array(
'start' => '35699353',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-001'
),
'ENST00000374078' => array(
'start' => '35699272',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-003'
),
'ENST00000397416' => array(
'start' => '35699451',
'end' => '35700910',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-005'
),
'ENST00000306750' => array(
'start' => '35694572',
'end' => '35699304',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-006'
),
'ENST00000374085' => array(
'start' => '35668699',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-003'
),
'ENST00000374092' => array(
'start' => '35668055',
'end' => '35699359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-001'
),
'ENST00000397425' => array(
'start' => '35668983',
'end' => '35699349',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-009'
),
'ENST00000413203' => array(
'start' => '35681965',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-011'
),
'ENST00000419569' => array(
'start' => '35690471',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-013'
),
'ENST00000421540' => array(
'start' => '35690526',
'end' => '35699355',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-010'
),
'ENST00000440385' => array(
'start' => '35668993',
'end' => '35699355',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-002'
),
'ENST00000456462' => array(
'start' => '35690413',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-012'
),
'ENST00000471137' => array(
'start' => '35673758',
'end' => '35674798',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-008'
),
'ENST00000480655' => array(
'start' => '35668964',
'end' => '35676186',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-004'
),
'ENST00000489163' => array(
'start' => '35674531',
'end' => '35682791',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-007'
),
'ENST00000498084' => array(
'start' => '35668964',
'end' => '35674066',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-005'
),
'ENST00000541387' => array(
'start' => '35669471',
'end' => '35699352',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-017'
),
'ENST00000441563' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-003'
),
'ENST00000454607' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-002'
),
'ENST00000541176' => array(
'start' => '35632340',
'end' => '35674544',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-001'
),
'ENSMUST00000029147' => array(
'start' => '156123639',
'end' => '156144186',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-001'
),
'ENSMUST00000109600' => array(
'start' => '156141787',
'end' => '156144180',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-002'
),
'ENSMUST00000125449' => array(
'start' => '156138507',
'end' => '156144153',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Nfs1-003'
),
'ENSMUST00000184469' => array(
'start' => '156123650',
'end' => '156139809',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-007'
),
'ENSMUST00000088610' => array(
'start' => '156144039',
'end' => '156145797',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-001'
),
'ENSMUST00000109597' => array(
'start' => '156144233',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-003'
),
'ENSMUST00000109598' => array(
'start' => '156144237',
'end' => '156145783',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-002'
),
'ENSMUST00000119950' => array(
'start' => '156144240',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-004'
),
'ENSMUST00000127956' => array(
'start' => '156071845',
'end' => '156098085',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-002'
),
'ENSMUST00000132494' => array(
'start' => '156071845',
'end' => '156111901',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-001'
),
'ENSMUST00000159952' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-008'
),
'ENSMUST00000160165' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-007'
),
'ENSMUST00000162612' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-006'
),
'ENSMUST00000183518' => array(
'start' => '156079424',
'end' => '156111931',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm28036-003'
),
'ENSMUST00000183972' => array(
'start' => '156079097',
'end' => '156096928',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-005'
),
'ENSMUST00000184899' => array(
'start' => '156079091',
'end' => '156111926',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-004'
)
),
'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_000135_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_000135_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000027618' => array(
[maximum depth reached]
),
'ENSMUSG00000067847' => array(
[maximum depth reached]
),
'ENSMUSG00000098950' => 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 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Bladder',
(int) 18 => 'Brain',
(int) 19 => 'Breast',
(int) 20 => 'Colon',
(int) 21 => 'Heart',
(int) 22 => 'Kidney',
(int) 23 => 'Liver',
(int) 24 => 'Lung',
(int) 25 => 'Muscle',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Ovary',
(int) 30 => 'Brain',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000125995' => 'reactive oxygen species modulator 1',
'ENSG00000244005' => 'NFS1 cysteine desulfurase',
'ENSG00000272897' => null,
'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
'ENSMUSG00000098950' => 'predicted gene, 28036'
)
$gene_name_arr = array(
'ENSG00000125995' => 'ROMO1',
'ENSG00000244005' => 'NFS1',
'ENSG00000272897' => 'RP1-309K20.6',
'ENSMUSG00000027618' => 'Nfs1',
'ENSMUSG00000067847' => 'Romo1',
'ENSMUSG00000098950' => 'Gm28036'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0001',
'tax_id' => '9606',
'chromosome' => '20',
'seq_start' => '35668055',
'seq_end' => '35700984',
'region_length' => '32929',
'region_type' => 'CGP',
'el_id' => 'ENSG00000244005-ENSG00000125995'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '156123639',
'seq_end' => '156145797',
'region_length' => '22158',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000027618-ENSMUSG00000067847'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 5 => 'Bladder',
(int) 7 => 'Brain',
(int) 12 => 'Breast',
(int) 14 => 'Colon',
(int) 16 => 'Heart',
(int) 19 => 'Kidney',
(int) 23 => 'Liver',
(int) 26 => 'Lung',
(int) 28 => 'Muscle',
(int) 32 => 'Ovary',
(int) 36 => 'Placenta',
(int) 39 => 'Testis'
)
$column_titles = array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
)
$geneviewer = array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
)
$transcript_count = (int) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000336695' => array(
'start' => '35699451',
'end' => '35700980',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-002'
),
'ENST00000374072' => array(
'start' => '35699442',
'end' => '35700978',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-004'
),
'ENST00000374077' => array(
'start' => '35699353',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-001'
),
'ENST00000374078' => array(
'start' => '35699272',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-003'
),
'ENST00000397416' => array(
'start' => '35699451',
'end' => '35700910',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-005'
),
'ENST00000306750' => array(
'start' => '35694572',
'end' => '35699304',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-006'
),
'ENST00000374085' => array(
'start' => '35668699',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-003'
),
'ENST00000374092' => array(
'start' => '35668055',
'end' => '35699359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-001'
),
'ENST00000397425' => array(
'start' => '35668983',
'end' => '35699349',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-009'
),
'ENST00000413203' => array(
'start' => '35681965',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-011'
),
'ENST00000419569' => array(
'start' => '35690471',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-013'
),
'ENST00000421540' => array(
'start' => '35690526',
'end' => '35699355',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-010'
),
'ENST00000440385' => array(
'start' => '35668993',
'end' => '35699355',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-002'
),
'ENST00000456462' => array(
'start' => '35690413',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-012'
),
'ENST00000471137' => array(
'start' => '35673758',
'end' => '35674798',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-008'
),
'ENST00000480655' => array(
'start' => '35668964',
'end' => '35676186',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-004'
),
'ENST00000489163' => array(
'start' => '35674531',
'end' => '35682791',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-007'
),
'ENST00000498084' => array(
'start' => '35668964',
'end' => '35674066',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-005'
),
'ENST00000541387' => array(
'start' => '35669471',
'end' => '35699352',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-017'
),
'ENST00000441563' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-003'
),
'ENST00000454607' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-002'
),
'ENST00000541176' => array(
'start' => '35632340',
'end' => '35674544',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-001'
),
'ENSMUST00000029147' => array(
'start' => '156123639',
'end' => '156144186',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-001'
),
'ENSMUST00000109600' => array(
'start' => '156141787',
'end' => '156144180',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-002'
),
'ENSMUST00000125449' => array(
'start' => '156138507',
'end' => '156144153',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Nfs1-003'
),
'ENSMUST00000184469' => array(
'start' => '156123650',
'end' => '156139809',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-007'
),
'ENSMUST00000088610' => array(
'start' => '156144039',
'end' => '156145797',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-001'
),
'ENSMUST00000109597' => array(
'start' => '156144233',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-003'
),
'ENSMUST00000109598' => array(
'start' => '156144237',
'end' => '156145783',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-002'
),
'ENSMUST00000119950' => array(
'start' => '156144240',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-004'
),
'ENSMUST00000127956' => array(
'start' => '156071845',
'end' => '156098085',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-002'
),
'ENSMUST00000132494' => array(
'start' => '156071845',
'end' => '156111901',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-001'
),
'ENSMUST00000159952' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-008'
),
'ENSMUST00000160165' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-007'
),
'ENSMUST00000162612' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-006'
),
'ENSMUST00000183518' => array(
'start' => '156079424',
'end' => '156111931',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm28036-003'
),
'ENSMUST00000183972' => array(
'start' => '156079097',
'end' => '156096928',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-005'
),
'ENSMUST00000184899' => array(
'start' => '156079091',
'end' => '156111926',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-004'
)
)
$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_000135_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000027618' => array(
[maximum depth reached]
),
'ENSMUSG00000067847' => array(
[maximum depth reached]
),
'ENSMUSG00000098950' => 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 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Bladder',
(int) 18 => 'Brain',
(int) 19 => 'Breast',
(int) 20 => 'Colon',
(int) 21 => 'Heart',
(int) 22 => 'Kidney',
(int) 23 => 'Liver',
(int) 24 => 'Lung',
(int) 25 => 'Muscle',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Ovary',
(int) 30 => 'Brain',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0001',
'tax_id' => '9606',
'chromosome' => '20',
'seq_start' => '35668055',
'seq_end' => '35700984',
'region_length' => '32929',
'region_type' => 'CGP',
'el_id' => 'ENSG00000244005-ENSG00000125995'
)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_000135_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000125995' => 'reactive oxygen species modulator 1',
'ENSG00000244005' => 'NFS1 cysteine desulfurase',
'ENSG00000272897' => null,
'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
'ENSMUSG00000098950' => 'predicted gene, 28036'
),
'gene_name_arr' => array(
'ENSG00000125995' => 'ROMO1',
'ENSG00000244005' => 'NFS1',
'ENSG00000272897' => 'RP1-309K20.6',
'ENSMUSG00000027618' => 'Nfs1',
'ENSMUSG00000067847' => 'Romo1',
'ENSMUSG00000098950' => 'Gm28036'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 5 => 'Bladder',
(int) 7 => 'Brain',
(int) 12 => 'Breast',
(int) 14 => 'Colon',
(int) 16 => 'Heart',
(int) 19 => 'Kidney',
(int) 23 => 'Liver',
(int) 26 => 'Lung',
(int) 28 => 'Muscle',
(int) 32 => 'Ovary',
(int) 36 => 'Placenta',
(int) 39 => 'Testis'
),
'column_titles' => array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
),
'geneviewer' => array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
),
'transcript_count' => (int) 38,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000336695' => array(
'start' => '35699451',
'end' => '35700980',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-002'
),
'ENST00000374072' => array(
'start' => '35699442',
'end' => '35700978',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-004'
),
'ENST00000374077' => array(
'start' => '35699353',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-001'
),
'ENST00000374078' => array(
'start' => '35699272',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-003'
),
'ENST00000397416' => array(
'start' => '35699451',
'end' => '35700910',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-005'
),
'ENST00000306750' => array(
'start' => '35694572',
'end' => '35699304',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-006'
),
'ENST00000374085' => array(
'start' => '35668699',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-003'
),
'ENST00000374092' => array(
'start' => '35668055',
'end' => '35699359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-001'
),
'ENST00000397425' => array(
'start' => '35668983',
'end' => '35699349',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-009'
),
'ENST00000413203' => array(
'start' => '35681965',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-011'
),
'ENST00000419569' => array(
'start' => '35690471',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-013'
),
'ENST00000421540' => array(
'start' => '35690526',
'end' => '35699355',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-010'
),
'ENST00000440385' => array(
'start' => '35668993',
'end' => '35699355',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-002'
),
'ENST00000456462' => array(
'start' => '35690413',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-012'
),
'ENST00000471137' => array(
'start' => '35673758',
'end' => '35674798',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-008'
),
'ENST00000480655' => array(
'start' => '35668964',
'end' => '35676186',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-004'
),
'ENST00000489163' => array(
'start' => '35674531',
'end' => '35682791',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-007'
),
'ENST00000498084' => array(
'start' => '35668964',
'end' => '35674066',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-005'
),
'ENST00000541387' => array(
'start' => '35669471',
'end' => '35699352',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-017'
),
'ENST00000441563' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-003'
),
'ENST00000454607' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-002'
),
'ENST00000541176' => array(
'start' => '35632340',
'end' => '35674544',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-001'
),
'ENSMUST00000029147' => array(
'start' => '156123639',
'end' => '156144186',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-001'
),
'ENSMUST00000109600' => array(
'start' => '156141787',
'end' => '156144180',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-002'
),
'ENSMUST00000125449' => array(
'start' => '156138507',
'end' => '156144153',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Nfs1-003'
),
'ENSMUST00000184469' => array(
'start' => '156123650',
'end' => '156139809',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-007'
),
'ENSMUST00000088610' => array(
'start' => '156144039',
'end' => '156145797',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-001'
),
'ENSMUST00000109597' => array(
'start' => '156144233',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-003'
),
'ENSMUST00000109598' => array(
'start' => '156144237',
'end' => '156145783',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-002'
),
'ENSMUST00000119950' => array(
'start' => '156144240',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-004'
),
'ENSMUST00000127956' => array(
'start' => '156071845',
'end' => '156098085',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-002'
),
'ENSMUST00000132494' => array(
'start' => '156071845',
'end' => '156111901',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-001'
),
'ENSMUST00000159952' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-008'
),
'ENSMUST00000160165' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-007'
),
'ENSMUST00000162612' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-006'
),
'ENSMUST00000183518' => array(
'start' => '156079424',
'end' => '156111931',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm28036-003'
),
'ENSMUST00000183972' => array(
'start' => '156079097',
'end' => '156096928',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-005'
),
'ENSMUST00000184899' => array(
'start' => '156079091',
'end' => '156111926',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-004'
)
),
'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_000135_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_000135_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000027618' => array(
[maximum depth reached]
),
'ENSMUSG00000067847' => array(
[maximum depth reached]
),
'ENSMUSG00000098950' => 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 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Bladder',
(int) 18 => 'Brain',
(int) 19 => 'Breast',
(int) 20 => 'Colon',
(int) 21 => 'Heart',
(int) 22 => 'Kidney',
(int) 23 => 'Liver',
(int) 24 => 'Lung',
(int) 25 => 'Muscle',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Ovary',
(int) 30 => 'Brain',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000125995' => 'reactive oxygen species modulator 1',
'ENSG00000244005' => 'NFS1 cysteine desulfurase',
'ENSG00000272897' => null,
'ENSMUSG00000027618' => 'nitrogen fixation gene 1 (S. cerevisiae)',
'ENSMUSG00000067847' => 'reactive oxygen species modulator 1',
'ENSMUSG00000098950' => 'predicted gene, 28036'
)
$gene_name_arr = array(
'ENSG00000125995' => 'ROMO1',
'ENSG00000244005' => 'NFS1',
'ENSG00000272897' => 'RP1-309K20.6',
'ENSMUSG00000027618' => 'Nfs1',
'ENSMUSG00000067847' => 'Romo1',
'ENSMUSG00000098950' => 'Gm28036'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0001',
'tax_id' => '9606',
'chromosome' => '20',
'seq_start' => '35668055',
'seq_end' => '35700984',
'region_length' => '32929',
'region_type' => 'CGP',
'el_id' => 'ENSG00000244005-ENSG00000125995'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0002',
'tax_id' => '10090',
'chromosome' => '2',
'seq_start' => '156123639',
'seq_end' => '156145797',
'region_length' => '22158',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000027618-ENSMUSG00000067847'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 5 => 'Bladder',
(int) 7 => 'Brain',
(int) 12 => 'Breast',
(int) 14 => 'Colon',
(int) 16 => 'Heart',
(int) 19 => 'Kidney',
(int) 23 => 'Liver',
(int) 26 => 'Lung',
(int) 28 => 'Muscle',
(int) 32 => 'Ovary',
(int) 36 => 'Placenta',
(int) 39 => 'Testis'
)
$column_titles = array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
)
$geneviewer = array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
)
$transcript_count = (int) 38
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000336695' => array(
'start' => '35699451',
'end' => '35700980',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-002'
),
'ENST00000374072' => array(
'start' => '35699442',
'end' => '35700978',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-004'
),
'ENST00000374077' => array(
'start' => '35699353',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-001'
),
'ENST00000374078' => array(
'start' => '35699272',
'end' => '35700984',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-003'
),
'ENST00000397416' => array(
'start' => '35699451',
'end' => '35700910',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ROMO1-005'
),
'ENST00000306750' => array(
'start' => '35694572',
'end' => '35699304',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-006'
),
'ENST00000374085' => array(
'start' => '35668699',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-003'
),
'ENST00000374092' => array(
'start' => '35668055',
'end' => '35699359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-001'
),
'ENST00000397425' => array(
'start' => '35668983',
'end' => '35699349',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-009'
),
'ENST00000413203' => array(
'start' => '35681965',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-011'
),
'ENST00000419569' => array(
'start' => '35690471',
'end' => '35699189',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-013'
),
'ENST00000421540' => array(
'start' => '35690526',
'end' => '35699355',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-010'
),
'ENST00000440385' => array(
'start' => '35668993',
'end' => '35699355',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-002'
),
'ENST00000456462' => array(
'start' => '35690413',
'end' => '35699352',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'NFS1-012'
),
'ENST00000471137' => array(
'start' => '35673758',
'end' => '35674798',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-008'
),
'ENST00000480655' => array(
'start' => '35668964',
'end' => '35676186',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'NFS1-004'
),
'ENST00000489163' => array(
'start' => '35674531',
'end' => '35682791',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-007'
),
'ENST00000498084' => array(
'start' => '35668964',
'end' => '35674066',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'NFS1-005'
),
'ENST00000541387' => array(
'start' => '35669471',
'end' => '35699352',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'NFS1-017'
),
'ENST00000441563' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-003'
),
'ENST00000454607' => array(
'start' => '35632340',
'end' => '35674400',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-002'
),
'ENST00000541176' => array(
'start' => '35632340',
'end' => '35674544',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RP1-309K20.6-001'
),
'ENSMUST00000029147' => array(
'start' => '156123639',
'end' => '156144186',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-001'
),
'ENSMUST00000109600' => array(
'start' => '156141787',
'end' => '156144180',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-002'
),
'ENSMUST00000125449' => array(
'start' => '156138507',
'end' => '156144153',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Nfs1-003'
),
'ENSMUST00000184469' => array(
'start' => '156123650',
'end' => '156139809',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Nfs1-007'
),
'ENSMUST00000088610' => array(
'start' => '156144039',
'end' => '156145797',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-001'
),
'ENSMUST00000109597' => array(
'start' => '156144233',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-003'
),
'ENSMUST00000109598' => array(
'start' => '156144237',
'end' => '156145783',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-002'
),
'ENSMUST00000119950' => array(
'start' => '156144240',
'end' => '156145794',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Romo1-004'
),
'ENSMUST00000127956' => array(
'start' => '156071845',
'end' => '156098085',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-002'
),
'ENSMUST00000132494' => array(
'start' => '156071845',
'end' => '156111901',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-001'
),
'ENSMUST00000159952' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-008'
),
'ENSMUST00000160165' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-007'
),
'ENSMUST00000162612' => array(
'start' => '156078929',
'end' => '156127092',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-006'
),
'ENSMUST00000183518' => array(
'start' => '156079424',
'end' => '156111931',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Gm28036-003'
),
'ENSMUST00000183972' => array(
'start' => '156079097',
'end' => '156096928',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-005'
),
'ENSMUST00000184899' => array(
'start' => '156079091',
'end' => '156111926',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Gm28036-004'
)
)
$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_000135_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000027618' => array(
[maximum depth reached]
),
'ENSMUSG00000067847' => array(
[maximum depth reached]
),
'ENSMUSG00000098950' => 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 => 'Adipose',
(int) 16 => 'Adrenal',
(int) 17 => 'Bladder',
(int) 18 => 'Brain',
(int) 19 => 'Breast',
(int) 20 => 'Colon',
(int) 21 => 'Heart',
(int) 22 => 'Kidney',
(int) 23 => 'Liver',
(int) 24 => 'Lung',
(int) 25 => 'Muscle',
(int) 26 => 'Ovary',
(int) 27 => 'Placenta',
(int) 28 => 'Testis',
(int) 29 => 'Ovary',
(int) 30 => 'Brain',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_000135_0001',
'tax_id' => '9606',
'chromosome' => '20',
'seq_start' => '35668055',
'seq_end' => '35700984',
'region_length' => '32929',
'region_type' => 'CGP',
'el_id' => 'ENSG00000244005-ENSG00000125995'
)
)
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
(Nfs1)