| Source ID |
Type |
Tax ID |
Position |
| ENSG00000197753-ENSG00000096063 |
CGP |
9606 |
6:35805293-35921342  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0002O2_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_0002O2_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000096063' => 'SRSF protein kinase 1',
'ENSG00000197753' => 'lipoma HMGIC fusion partner-like 5',
'ENSMUSG00000004865' => 'serine/arginine-rich protein specific kinase 1',
'ENSMUSG00000062252' => 'lipoma HMGIC fusion partner-like 5'
),
'gene_name_arr' => array(
'ENSG00000096063' => 'SRPK1',
'ENSG00000197753' => 'LHFPL5',
'ENSMUSG00000004865' => 'Srpk1',
'ENSMUSG00000062252' => 'Lhfpl5'
),
'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) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 13 => 'Brain',
(int) 18 => 'Breast',
(int) 23 => 'Colon',
(int) 28 => 'Heart',
(int) 32 => 'Kidney',
(int) 37 => 'Liver',
(int) 43 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 63 => 'Placenta',
(int) 70 => '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) 24,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000346162' => array(
'start' => '35833034',
'end' => '35921065',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-003'
),
'ENST00000361690' => array(
'start' => '35833034',
'end' => '35921047',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-005'
),
'ENST00000373821' => array(
'start' => '35874240',
'end' => '35895719',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'SRPK1-008'
),
'ENST00000373822' => array(
'start' => '35833035',
'end' => '35921065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-201'
),
'ENST00000373825' => array(
'start' => '35832966',
'end' => '35921342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-001'
),
'ENST00000423325' => array(
'start' => '35833034',
'end' => '35921147',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-002'
),
'ENST00000502969' => array(
'start' => '35869589',
'end' => '35870990',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-011'
),
'ENST00000505885' => array(
'start' => '35835428',
'end' => '35838841',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-013'
),
'ENST00000507292' => array(
'start' => '35856934',
'end' => '35869551',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-012'
),
'ENST00000507909' => array(
'start' => '35890949',
'end' => '35921095',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-007'
),
'ENST00000508473' => array(
'start' => '35886726',
'end' => '35921342',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-006'
),
'ENST00000510290' => array(
'start' => '35869667',
'end' => '35921128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-010'
),
'ENST00000512445' => array(
'start' => '35886783',
'end' => '35921072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-004'
),
'ENST00000513367' => array(
'start' => '35887825',
'end' => '35921101',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-009'
),
'ENST00000360215' => array(
'start' => '35805293',
'end' => '35824075',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LHFPL5-002'
),
'ENST00000496656' => array(
'start' => '35811245',
'end' => '35833874',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LHFPL5-001'
),
'ENSMUST00000004987' => array(
'start' => '28589591',
'end' => '28607169',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Srpk1-002'
),
'ENSMUST00000114767' => array(
'start' => '28620143',
'end' => '28622472',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-005'
),
'ENSMUST00000126683' => array(
'start' => '28595463',
'end' => '28600886',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-004'
),
'ENSMUST00000130643' => array(
'start' => '28587648',
'end' => '28622521',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-001'
),
'ENSMUST00000136504' => array(
'start' => '28589989',
'end' => '28592425',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-007'
),
'ENSMUST00000145023' => array(
'start' => '28602548',
'end' => '28622451',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-003'
),
'ENSMUST00000145730' => array(
'start' => '28600336',
'end' => '28601263',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-006'
),
'ENSMUST00000080780' => array(
'start' => '28575718',
'end' => '28583593',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lhfpl5-001'
)
),
'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_0002O2_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0002O2_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000004865' => array(
[maximum depth reached]
),
'ENSMUSG00000062252' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Lung',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Muscle',
(int) 29 => 'Ovary',
(int) 30 => 'Placenta',
(int) 31 => 'Testis',
(int) 32 => 'Testis',
(int) 33 => 'Adipose',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000096063' => 'SRSF protein kinase 1',
'ENSG00000197753' => 'lipoma HMGIC fusion partner-like 5',
'ENSMUSG00000004865' => 'serine/arginine-rich protein specific kinase 1',
'ENSMUSG00000062252' => 'lipoma HMGIC fusion partner-like 5'
)
$gene_name_arr = array(
'ENSG00000096063' => 'SRPK1',
'ENSG00000197753' => 'LHFPL5',
'ENSMUSG00000004865' => 'Srpk1',
'ENSMUSG00000062252' => 'Lhfpl5'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '35805293',
'seq_end' => '35921342',
'region_length' => '116049',
'region_type' => 'CGP',
'el_id' => 'ENSG00000197753-ENSG00000096063'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0002',
'tax_id' => '10090',
'chromosome' => '17',
'seq_start' => '28575718',
'seq_end' => '28622521',
'region_length' => '46803',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000062252-ENSMUSG00000004865'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 13 => 'Brain',
(int) 18 => 'Breast',
(int) 23 => 'Colon',
(int) 28 => 'Heart',
(int) 32 => 'Kidney',
(int) 37 => 'Liver',
(int) 43 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 63 => 'Placenta',
(int) 70 => '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) 24
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000346162' => array(
'start' => '35833034',
'end' => '35921065',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-003'
),
'ENST00000361690' => array(
'start' => '35833034',
'end' => '35921047',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-005'
),
'ENST00000373821' => array(
'start' => '35874240',
'end' => '35895719',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'SRPK1-008'
),
'ENST00000373822' => array(
'start' => '35833035',
'end' => '35921065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-201'
),
'ENST00000373825' => array(
'start' => '35832966',
'end' => '35921342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-001'
),
'ENST00000423325' => array(
'start' => '35833034',
'end' => '35921147',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-002'
),
'ENST00000502969' => array(
'start' => '35869589',
'end' => '35870990',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-011'
),
'ENST00000505885' => array(
'start' => '35835428',
'end' => '35838841',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-013'
),
'ENST00000507292' => array(
'start' => '35856934',
'end' => '35869551',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-012'
),
'ENST00000507909' => array(
'start' => '35890949',
'end' => '35921095',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-007'
),
'ENST00000508473' => array(
'start' => '35886726',
'end' => '35921342',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-006'
),
'ENST00000510290' => array(
'start' => '35869667',
'end' => '35921128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-010'
),
'ENST00000512445' => array(
'start' => '35886783',
'end' => '35921072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-004'
),
'ENST00000513367' => array(
'start' => '35887825',
'end' => '35921101',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-009'
),
'ENST00000360215' => array(
'start' => '35805293',
'end' => '35824075',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LHFPL5-002'
),
'ENST00000496656' => array(
'start' => '35811245',
'end' => '35833874',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LHFPL5-001'
),
'ENSMUST00000004987' => array(
'start' => '28589591',
'end' => '28607169',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Srpk1-002'
),
'ENSMUST00000114767' => array(
'start' => '28620143',
'end' => '28622472',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-005'
),
'ENSMUST00000126683' => array(
'start' => '28595463',
'end' => '28600886',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-004'
),
'ENSMUST00000130643' => array(
'start' => '28587648',
'end' => '28622521',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-001'
),
'ENSMUST00000136504' => array(
'start' => '28589989',
'end' => '28592425',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-007'
),
'ENSMUST00000145023' => array(
'start' => '28602548',
'end' => '28622451',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-003'
),
'ENSMUST00000145730' => array(
'start' => '28600336',
'end' => '28601263',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-006'
),
'ENSMUST00000080780' => array(
'start' => '28575718',
'end' => '28583593',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lhfpl5-001'
)
)
$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_0002O2_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000004865' => array(
[maximum depth reached]
),
'ENSMUSG00000062252' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Lung',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Muscle',
(int) 29 => 'Ovary',
(int) 30 => 'Placenta',
(int) 31 => 'Testis',
(int) 32 => 'Testis',
(int) 33 => 'Adipose',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '35805293',
'seq_end' => '35921342',
'region_length' => '116049',
'region_type' => 'CGP',
'el_id' => 'ENSG00000197753-ENSG00000096063'
)
)
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0002O2_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000096063' => 'SRSF protein kinase 1',
'ENSG00000197753' => 'lipoma HMGIC fusion partner-like 5',
'ENSMUSG00000004865' => 'serine/arginine-rich protein specific kinase 1',
'ENSMUSG00000062252' => 'lipoma HMGIC fusion partner-like 5'
),
'gene_name_arr' => array(
'ENSG00000096063' => 'SRPK1',
'ENSG00000197753' => 'LHFPL5',
'ENSMUSG00000004865' => 'Srpk1',
'ENSMUSG00000062252' => 'Lhfpl5'
),
'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) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 13 => 'Brain',
(int) 18 => 'Breast',
(int) 23 => 'Colon',
(int) 28 => 'Heart',
(int) 32 => 'Kidney',
(int) 37 => 'Liver',
(int) 43 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 63 => 'Placenta',
(int) 70 => '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) 24,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000346162' => array(
'start' => '35833034',
'end' => '35921065',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-003'
),
'ENST00000361690' => array(
'start' => '35833034',
'end' => '35921047',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-005'
),
'ENST00000373821' => array(
'start' => '35874240',
'end' => '35895719',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'SRPK1-008'
),
'ENST00000373822' => array(
'start' => '35833035',
'end' => '35921065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-201'
),
'ENST00000373825' => array(
'start' => '35832966',
'end' => '35921342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-001'
),
'ENST00000423325' => array(
'start' => '35833034',
'end' => '35921147',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-002'
),
'ENST00000502969' => array(
'start' => '35869589',
'end' => '35870990',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-011'
),
'ENST00000505885' => array(
'start' => '35835428',
'end' => '35838841',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-013'
),
'ENST00000507292' => array(
'start' => '35856934',
'end' => '35869551',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-012'
),
'ENST00000507909' => array(
'start' => '35890949',
'end' => '35921095',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-007'
),
'ENST00000508473' => array(
'start' => '35886726',
'end' => '35921342',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-006'
),
'ENST00000510290' => array(
'start' => '35869667',
'end' => '35921128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-010'
),
'ENST00000512445' => array(
'start' => '35886783',
'end' => '35921072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-004'
),
'ENST00000513367' => array(
'start' => '35887825',
'end' => '35921101',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-009'
),
'ENST00000360215' => array(
'start' => '35805293',
'end' => '35824075',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LHFPL5-002'
),
'ENST00000496656' => array(
'start' => '35811245',
'end' => '35833874',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LHFPL5-001'
),
'ENSMUST00000004987' => array(
'start' => '28589591',
'end' => '28607169',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Srpk1-002'
),
'ENSMUST00000114767' => array(
'start' => '28620143',
'end' => '28622472',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-005'
),
'ENSMUST00000126683' => array(
'start' => '28595463',
'end' => '28600886',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-004'
),
'ENSMUST00000130643' => array(
'start' => '28587648',
'end' => '28622521',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-001'
),
'ENSMUST00000136504' => array(
'start' => '28589989',
'end' => '28592425',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-007'
),
'ENSMUST00000145023' => array(
'start' => '28602548',
'end' => '28622451',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-003'
),
'ENSMUST00000145730' => array(
'start' => '28600336',
'end' => '28601263',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-006'
),
'ENSMUST00000080780' => array(
'start' => '28575718',
'end' => '28583593',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lhfpl5-001'
)
),
'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_0002O2_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0002O2_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000004865' => array(
[maximum depth reached]
),
'ENSMUSG00000062252' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Lung',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Muscle',
(int) 29 => 'Ovary',
(int) 30 => 'Placenta',
(int) 31 => 'Testis',
(int) 32 => 'Testis',
(int) 33 => 'Adipose',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000096063' => 'SRSF protein kinase 1',
'ENSG00000197753' => 'lipoma HMGIC fusion partner-like 5',
'ENSMUSG00000004865' => 'serine/arginine-rich protein specific kinase 1',
'ENSMUSG00000062252' => 'lipoma HMGIC fusion partner-like 5'
)
$gene_name_arr = array(
'ENSG00000096063' => 'SRPK1',
'ENSG00000197753' => 'LHFPL5',
'ENSMUSG00000004865' => 'Srpk1',
'ENSMUSG00000062252' => 'Lhfpl5'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '35805293',
'seq_end' => '35921342',
'region_length' => '116049',
'region_type' => 'CGP',
'el_id' => 'ENSG00000197753-ENSG00000096063'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0002',
'tax_id' => '10090',
'chromosome' => '17',
'seq_start' => '28575718',
'seq_end' => '28622521',
'region_length' => '46803',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000062252-ENSMUSG00000004865'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 13 => 'Brain',
(int) 18 => 'Breast',
(int) 23 => 'Colon',
(int) 28 => 'Heart',
(int) 32 => 'Kidney',
(int) 37 => 'Liver',
(int) 43 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 63 => 'Placenta',
(int) 70 => '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) 24
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000346162' => array(
'start' => '35833034',
'end' => '35921065',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-003'
),
'ENST00000361690' => array(
'start' => '35833034',
'end' => '35921047',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-005'
),
'ENST00000373821' => array(
'start' => '35874240',
'end' => '35895719',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'SRPK1-008'
),
'ENST00000373822' => array(
'start' => '35833035',
'end' => '35921065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-201'
),
'ENST00000373825' => array(
'start' => '35832966',
'end' => '35921342',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-001'
),
'ENST00000423325' => array(
'start' => '35833034',
'end' => '35921147',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-002'
),
'ENST00000502969' => array(
'start' => '35869589',
'end' => '35870990',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-011'
),
'ENST00000505885' => array(
'start' => '35835428',
'end' => '35838841',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-013'
),
'ENST00000507292' => array(
'start' => '35856934',
'end' => '35869551',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-012'
),
'ENST00000507909' => array(
'start' => '35890949',
'end' => '35921095',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-007'
),
'ENST00000508473' => array(
'start' => '35886726',
'end' => '35921342',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'SRPK1-006'
),
'ENST00000510290' => array(
'start' => '35869667',
'end' => '35921128',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-010'
),
'ENST00000512445' => array(
'start' => '35886783',
'end' => '35921072',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'SRPK1-004'
),
'ENST00000513367' => array(
'start' => '35887825',
'end' => '35921101',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'SRPK1-009'
),
'ENST00000360215' => array(
'start' => '35805293',
'end' => '35824075',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'LHFPL5-002'
),
'ENST00000496656' => array(
'start' => '35811245',
'end' => '35833874',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'LHFPL5-001'
),
'ENSMUST00000004987' => array(
'start' => '28589591',
'end' => '28607169',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Srpk1-002'
),
'ENSMUST00000114767' => array(
'start' => '28620143',
'end' => '28622472',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-005'
),
'ENSMUST00000126683' => array(
'start' => '28595463',
'end' => '28600886',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-004'
),
'ENSMUST00000130643' => array(
'start' => '28587648',
'end' => '28622521',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Srpk1-001'
),
'ENSMUST00000136504' => array(
'start' => '28589989',
'end' => '28592425',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-007'
),
'ENSMUST00000145023' => array(
'start' => '28602548',
'end' => '28622451',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-003'
),
'ENSMUST00000145730' => array(
'start' => '28600336',
'end' => '28601263',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Srpk1-006'
),
'ENSMUST00000080780' => array(
'start' => '28575718',
'end' => '28583593',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Lhfpl5-001'
)
)
$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_0002O2_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000004865' => array(
[maximum depth reached]
),
'ENSMUSG00000062252' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Lung',
(int) 14 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 16 => 'Bladder',
(int) 17 => 'Brain',
(int) 18 => 'Breast',
(int) 19 => 'Colon',
(int) 20 => 'Heart',
(int) 21 => 'Kidney',
(int) 22 => 'Liver',
(int) 23 => 'Lung',
(int) 24 => 'Muscle',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Muscle',
(int) 29 => 'Ovary',
(int) 30 => 'Placenta',
(int) 31 => 'Testis',
(int) 32 => 'Testis',
(int) 33 => 'Adipose',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Brain',
(int) 37 => 'Colon',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Liver',
(int) 41 => 'Lung',
(int) 42 => 'Ovary',
(int) 43 => 'Placenta',
(int) 44 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0002O2_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '35805293',
'seq_end' => '35921342',
'region_length' => '116049',
'region_type' => 'CGP',
'el_id' => 'ENSG00000197753-ENSG00000096063'
)
)
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
(Srpk1)