| Source ID |
Type |
Tax ID |
Position |
| MARCKS |
UCNEbase |
9606 |
6:113863843-113865068  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007P5_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_0007P5_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000277443' => 'myristoylated alanine-rich protein kinase C substrate',
'ENSG00000227502' => 'long intergenic non-protein coding RNA 1268',
'ENSG00000175967' => 'uncharacterized FLJ34503',
'ENSG00000196591' => 'histone deacetylase 2',
'ENSG00000212333' => 'RNA, 5S ribosomal pseudogene 213',
'ENSG00000216471' => 'ribosomal protein SA pseudogene 43',
'ENSG00000216723' => 'nudix (nucleoside diphosphate linked moiety X)-type motif 19 pseudogene 3',
'ENSG00000218089' => 'DnaJ (Hsp40) homolog, subfamily A, member 1 pseudogene 4',
'ENSG00000221599' => null,
'ENSG00000228624' => null,
'ENSG00000249853' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000019777' => 'histone deacetylase 2',
'ENSMUSG00000044499' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000069662' => 'myristoylated alanine rich protein kinase C substrate',
'ENSMUSG00000088423' => 'predicted gene, 22554'
),
'gene_name_arr' => array(
'ENSG00000277443' => 'MARCKS',
'ENSG00000227502' => 'LINC01268',
'ENSG00000175967' => 'FLJ34503',
'ENSG00000196591' => 'HDAC2',
'ENSG00000212333' => 'RNA5SP213',
'ENSG00000216471' => 'RPSAP43',
'ENSG00000216723' => 'NUDT19P3',
'ENSG00000218089' => 'DNAJA1P4',
'ENSG00000221599' => 'AL136446.1',
'ENSG00000228624' => 'RP3-399L15.3',
'ENSG00000249853' => 'HS3ST5',
'ENSMUSG00000019777' => 'Hdac2',
'ENSMUSG00000044499' => 'Hs3st5',
'ENSMUSG00000069662' => 'Marcks',
'ENSMUSG00000088423' => 'Gm22554'
),
'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]
)
),
(int) 5 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 6 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 7 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 8 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 9 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 10 => 'Adrenal',
(int) 19 => 'Bladder',
(int) 29 => 'Brain',
(int) 46 => 'Breast',
(int) 62 => 'Colon',
(int) 79 => 'Heart',
(int) 92 => 'Kidney',
(int) 106 => 'Liver',
(int) 120 => 'Lung',
(int) 133 => 'Muscle',
(int) 143 => 'Ovary',
(int) 162 => 'Placenta',
(int) 173 => '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) 58,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000612661' => array(
'start' => '113857362',
'end' => '113863471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-001'
),
'ENST00000617290' => array(
'start' => '113857438',
'end' => '113861146',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-201'
),
'ENST00000434296' => array(
'start' => '113868013',
'end' => '113873351',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01268-001'
),
'ENST00000314481' => array(
'start' => '113904138',
'end' => '113921642',
'transcript_biotype' => 'antisense',
'transcript_name' => 'FLJ34503-001'
),
'ENST00000368632' => array(
'start' => '113940718',
'end' => '113971157',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-003'
),
'ENST00000425835' => array(
'start' => '113955927',
'end' => '113970878',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-002'
),
'ENST00000518690' => array(
'start' => '113956674',
'end' => '113970729',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-006'
),
'ENST00000518756' => array(
'start' => '113953400',
'end' => '113957286',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-016'
),
'ENST00000519065' => array(
'start' => '113933028',
'end' => '113971285',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-001'
),
'ENST00000519108' => array(
'start' => '113940718',
'end' => '113970724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-004'
),
'ENST00000520170' => array(
'start' => '113959610',
'end' => '113971137',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-013'
),
'ENST00000520746' => array(
'start' => '113945380',
'end' => '113949323',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-017'
),
'ENST00000520895' => array(
'start' => '113958662',
'end' => '113971126',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-010'
),
'ENST00000521163' => array(
'start' => '113956670',
'end' => '113971137',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-015'
),
'ENST00000521233' => array(
'start' => '113958427',
'end' => '113971136',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-014'
),
'ENST00000521610' => array(
'start' => '113956119',
'end' => '113970495',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-008'
),
'ENST00000522371' => array(
'start' => '113956629',
'end' => '114011308',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-012'
),
'ENST00000523240' => array(
'start' => '113956690',
'end' => '113970710',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-007'
),
'ENST00000523334' => array(
'start' => '113940718',
'end' => '113956602',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-005'
),
'ENST00000523628' => array(
'start' => '113956110',
'end' => '113968530',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-011'
),
'ENST00000524334' => array(
'start' => '113958684',
'end' => '113971139',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-009'
),
'ENST00000391031' => array(
'start' => '114220681',
'end' => '114220786',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP213-201'
),
'ENST00000402237' => array(
'start' => '114084168',
'end' => '114084792',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPSAP43-001'
),
'ENST00000404698' => array(
'start' => '114019621',
'end' => '114020483',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NUDT19P3-001'
),
'ENST00000406473' => array(
'start' => '114349483',
'end' => '114350648',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'DNAJA1P4-001'
),
'ENST00000408672' => array(
'start' => '114277385',
'end' => '114277478',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL136446.1-201'
),
'ENST00000421891' => array(
'start' => '113995144',
'end' => '113999798',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-010'
),
'ENST00000431399' => array(
'start' => '114112386',
'end' => '114132303',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-007'
),
'ENST00000436876' => array(
'start' => '113970106',
'end' => '113995644',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-014'
),
'ENST00000449620' => array(
'start' => '113970235',
'end' => '113995802',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-015'
),
'ENST00000451415' => array(
'start' => '114230141',
'end' => '114239199',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-005'
),
'ENST00000517965' => array(
'start' => '114448960',
'end' => '114456634',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-002'
),
'ENST00000518470' => array(
'start' => '114281812',
'end' => '114468574',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-003'
),
'ENST00000519104' => array(
'start' => '113969701',
'end' => '114340738',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-004'
),
'ENST00000519270' => array(
'start' => '113995975',
'end' => '114059788',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-009'
),
'ENST00000519629' => array(
'start' => '113995244',
'end' => '113995915',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-017'
),
'ENST00000520034' => array(
'start' => '114084569',
'end' => '114143918',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-008'
),
'ENST00000520554' => array(
'start' => '113969954',
'end' => '113993463',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-013'
),
'ENST00000520891' => array(
'start' => '113971496',
'end' => '113995815',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-012'
),
'ENST00000521888' => array(
'start' => '113971495',
'end' => '113993356',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-016'
),
'ENST00000522697' => array(
'start' => '114425612',
'end' => '114471705',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-001'
),
'ENST00000522844' => array(
'start' => '113971518',
'end' => '113995869',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-011'
),
'ENST00000523087' => array(
'start' => '113995955',
'end' => '114235716',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-006'
),
'ENST00000606947' => array(
'start' => '114231348',
'end' => '114251919',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-018'
),
'ENST00000312719' => array(
'start' => '114055586',
'end' => '114343045',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-001'
),
'ENST00000411826' => array(
'start' => '114055586',
'end' => '114062877',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-201'
),
'ENST00000441954' => array(
'start' => '114167477',
'end' => '114168450',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'HS3ST5-002'
),
'ENSMUST00000019911' => array(
'start' => '36974544',
'end' => '37001889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-001'
),
'ENSMUST00000105510' => array(
'start' => '36974570',
'end' => '36996111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-002'
),
'ENSMUST00000123010' => array(
'start' => '36998172',
'end' => '37001611',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hdac2-004'
),
'ENSMUST00000128031' => array(
'start' => '36991766',
'end' => '37001888',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hdac2-003'
),
'ENSMUST00000058738' => array(
'start' => '36506819',
'end' => '36834389',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-001'
),
'ENSMUST00000167191' => array(
'start' => '36506814',
'end' => '36833773',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-002'
),
'ENSMUST00000168572' => array(
'start' => '36507026',
'end' => '36834397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-004'
),
'ENSMUST00000171521' => array(
'start' => '36507407',
'end' => '36810038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hs3st5-005'
),
'ENSMUST00000172357' => array(
'start' => '36506889',
'end' => '36702949',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hs3st5-003'
),
'ENSMUST00000092584' => array(
'start' => '37133375',
'end' => '37138920',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Marcks-001'
),
'ENSMUST00000157798' => array(
'start' => '36775785',
'end' => '36775931',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22554-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
'ENSG00000277443' => 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 => 'Bladder',
(int) 15 => 'Brain',
(int) 16 => 'Breast',
(int) 17 => 'Colon',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta'
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
'ENSG00000227502' => 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'
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
'ENSG00000175967' => array(
[maximum depth reached]
),
'ENSG00000196591' => array(
[maximum depth reached]
),
'ENSG00000216723' => array(
[maximum depth reached]
),
'ENSG00000218089' => array(
[maximum depth reached]
),
'ENSG00000249853' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Liver',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Brain',
(int) 25 => 'Colon',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Kidney',
(int) 43 => 'Liver',
(int) 44 => 'Muscle',
(int) 45 => 'Ovary',
(int) 46 => 'Breast',
(int) 47 => 'Colon',
(int) 48 => 'Lung',
(int) 49 => 'Brain',
(int) 50 => 'Heart',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Testis',
(int) 54 => 'Bladder',
(int) 55 => 'Brain',
(int) 56 => 'Breast',
(int) 57 => 'Colon',
(int) 58 => 'Kidney',
(int) 59 => 'Liver',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Heart',
(int) 66 => 'Kidney',
(int) 67 => 'Muscle',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Breast',
(int) 71 => 'Ovary',
(int) 72 => 'Testis'
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
'ENSMUSG00000019777' => array(
[maximum depth reached]
),
'ENSMUSG00000044499' => array(
[maximum depth reached]
),
'ENSMUSG00000069662' => 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 => 'Adipose',
(int) 15 => 'Breast',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Brain',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Adipose',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Ovary',
(int) 30 => 'Adipose',
(int) 31 => 'Adrenal',
(int) 32 => 'Bladder',
(int) 33 => 'Brain',
(int) 34 => 'Breast',
(int) 35 => 'Colon',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Bladder',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Muscle',
(int) 46 => 'Ovary',
(int) 47 => 'Testis',
(int) 48 => 'Adipose',
(int) 49 => 'Colon',
(int) 50 => 'Kidney',
(int) 51 => 'Ovary',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Lung',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Bladder',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Colon',
(int) 66 => 'Heart',
(int) 67 => 'Kidney',
(int) 68 => 'Liver',
(int) 69 => 'Lung',
(int) 70 => 'Muscle',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000277443' => 'myristoylated alanine-rich protein kinase C substrate',
'ENSG00000227502' => 'long intergenic non-protein coding RNA 1268',
'ENSG00000175967' => 'uncharacterized FLJ34503',
'ENSG00000196591' => 'histone deacetylase 2',
'ENSG00000212333' => 'RNA, 5S ribosomal pseudogene 213',
'ENSG00000216471' => 'ribosomal protein SA pseudogene 43',
'ENSG00000216723' => 'nudix (nucleoside diphosphate linked moiety X)-type motif 19 pseudogene 3',
'ENSG00000218089' => 'DnaJ (Hsp40) homolog, subfamily A, member 1 pseudogene 4',
'ENSG00000221599' => null,
'ENSG00000228624' => null,
'ENSG00000249853' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000019777' => 'histone deacetylase 2',
'ENSMUSG00000044499' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000069662' => 'myristoylated alanine rich protein kinase C substrate',
'ENSMUSG00000088423' => 'predicted gene, 22554'
)
$gene_name_arr = array(
'ENSG00000277443' => 'MARCKS',
'ENSG00000227502' => 'LINC01268',
'ENSG00000175967' => 'FLJ34503',
'ENSG00000196591' => 'HDAC2',
'ENSG00000212333' => 'RNA5SP213',
'ENSG00000216471' => 'RPSAP43',
'ENSG00000216723' => 'NUDT19P3',
'ENSG00000218089' => 'DNAJA1P4',
'ENSG00000221599' => 'AL136446.1',
'ENSG00000228624' => 'RP3-399L15.3',
'ENSG00000249853' => 'HS3ST5',
'ENSMUSG00000019777' => 'Hdac2',
'ENSMUSG00000044499' => 'Hs3st5',
'ENSMUSG00000069662' => 'Marcks',
'ENSMUSG00000088423' => 'Gm22554'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861204',
'seq_end' => '113861604',
'region_length' => '400',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0002',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861604',
'seq_end' => '113861983',
'region_length' => '379',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0003',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861984',
'seq_end' => '113862415',
'region_length' => '431',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0004',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113862417',
'seq_end' => '113863825',
'region_length' => '1408',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0005',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113863843',
'seq_end' => '113865068',
'region_length' => '1225',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0006',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113865072',
'seq_end' => '113867176',
'region_length' => '2104',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 6 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0007',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113867176',
'seq_end' => '113884878',
'region_length' => '17702',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 7 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0008',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113884878',
'seq_end' => '113887000',
'region_length' => '2122',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 8 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0009',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113887002',
'seq_end' => '114451190',
'region_length' => '564188',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 9 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_000A',
'tax_id' => '10090',
'chromosome' => '10',
'seq_start' => '36379394',
'seq_end' => '37135425',
'region_length' => '756031',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 10 => 'Adrenal',
(int) 19 => 'Bladder',
(int) 29 => 'Brain',
(int) 46 => 'Breast',
(int) 62 => 'Colon',
(int) 79 => 'Heart',
(int) 92 => 'Kidney',
(int) 106 => 'Liver',
(int) 120 => 'Lung',
(int) 133 => 'Muscle',
(int) 143 => 'Ovary',
(int) 162 => 'Placenta',
(int) 173 => '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) 58
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000612661' => array(
'start' => '113857362',
'end' => '113863471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-001'
),
'ENST00000617290' => array(
'start' => '113857438',
'end' => '113861146',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-201'
),
'ENST00000434296' => array(
'start' => '113868013',
'end' => '113873351',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01268-001'
),
'ENST00000314481' => array(
'start' => '113904138',
'end' => '113921642',
'transcript_biotype' => 'antisense',
'transcript_name' => 'FLJ34503-001'
),
'ENST00000368632' => array(
'start' => '113940718',
'end' => '113971157',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-003'
),
'ENST00000425835' => array(
'start' => '113955927',
'end' => '113970878',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-002'
),
'ENST00000518690' => array(
'start' => '113956674',
'end' => '113970729',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-006'
),
'ENST00000518756' => array(
'start' => '113953400',
'end' => '113957286',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-016'
),
'ENST00000519065' => array(
'start' => '113933028',
'end' => '113971285',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-001'
),
'ENST00000519108' => array(
'start' => '113940718',
'end' => '113970724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-004'
),
'ENST00000520170' => array(
'start' => '113959610',
'end' => '113971137',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-013'
),
'ENST00000520746' => array(
'start' => '113945380',
'end' => '113949323',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-017'
),
'ENST00000520895' => array(
'start' => '113958662',
'end' => '113971126',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-010'
),
'ENST00000521163' => array(
'start' => '113956670',
'end' => '113971137',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-015'
),
'ENST00000521233' => array(
'start' => '113958427',
'end' => '113971136',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-014'
),
'ENST00000521610' => array(
'start' => '113956119',
'end' => '113970495',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-008'
),
'ENST00000522371' => array(
'start' => '113956629',
'end' => '114011308',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-012'
),
'ENST00000523240' => array(
'start' => '113956690',
'end' => '113970710',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-007'
),
'ENST00000523334' => array(
'start' => '113940718',
'end' => '113956602',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-005'
),
'ENST00000523628' => array(
'start' => '113956110',
'end' => '113968530',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-011'
),
'ENST00000524334' => array(
'start' => '113958684',
'end' => '113971139',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-009'
),
'ENST00000391031' => array(
'start' => '114220681',
'end' => '114220786',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP213-201'
),
'ENST00000402237' => array(
'start' => '114084168',
'end' => '114084792',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPSAP43-001'
),
'ENST00000404698' => array(
'start' => '114019621',
'end' => '114020483',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NUDT19P3-001'
),
'ENST00000406473' => array(
'start' => '114349483',
'end' => '114350648',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'DNAJA1P4-001'
),
'ENST00000408672' => array(
'start' => '114277385',
'end' => '114277478',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL136446.1-201'
),
'ENST00000421891' => array(
'start' => '113995144',
'end' => '113999798',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-010'
),
'ENST00000431399' => array(
'start' => '114112386',
'end' => '114132303',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-007'
),
'ENST00000436876' => array(
'start' => '113970106',
'end' => '113995644',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-014'
),
'ENST00000449620' => array(
'start' => '113970235',
'end' => '113995802',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-015'
),
'ENST00000451415' => array(
'start' => '114230141',
'end' => '114239199',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-005'
),
'ENST00000517965' => array(
'start' => '114448960',
'end' => '114456634',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-002'
),
'ENST00000518470' => array(
'start' => '114281812',
'end' => '114468574',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-003'
),
'ENST00000519104' => array(
'start' => '113969701',
'end' => '114340738',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-004'
),
'ENST00000519270' => array(
'start' => '113995975',
'end' => '114059788',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-009'
),
'ENST00000519629' => array(
'start' => '113995244',
'end' => '113995915',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-017'
),
'ENST00000520034' => array(
'start' => '114084569',
'end' => '114143918',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-008'
),
'ENST00000520554' => array(
'start' => '113969954',
'end' => '113993463',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-013'
),
'ENST00000520891' => array(
'start' => '113971496',
'end' => '113995815',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-012'
),
'ENST00000521888' => array(
'start' => '113971495',
'end' => '113993356',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-016'
),
'ENST00000522697' => array(
'start' => '114425612',
'end' => '114471705',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-001'
),
'ENST00000522844' => array(
'start' => '113971518',
'end' => '113995869',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-011'
),
'ENST00000523087' => array(
'start' => '113995955',
'end' => '114235716',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-006'
),
'ENST00000606947' => array(
'start' => '114231348',
'end' => '114251919',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-018'
),
'ENST00000312719' => array(
'start' => '114055586',
'end' => '114343045',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-001'
),
'ENST00000411826' => array(
'start' => '114055586',
'end' => '114062877',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-201'
),
'ENST00000441954' => array(
'start' => '114167477',
'end' => '114168450',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'HS3ST5-002'
),
'ENSMUST00000019911' => array(
'start' => '36974544',
'end' => '37001889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-001'
),
'ENSMUST00000105510' => array(
'start' => '36974570',
'end' => '36996111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-002'
),
'ENSMUST00000123010' => array(
'start' => '36998172',
'end' => '37001611',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hdac2-004'
),
'ENSMUST00000128031' => array(
'start' => '36991766',
'end' => '37001888',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hdac2-003'
),
'ENSMUST00000058738' => array(
'start' => '36506819',
'end' => '36834389',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-001'
),
'ENSMUST00000167191' => array(
'start' => '36506814',
'end' => '36833773',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-002'
),
'ENSMUST00000168572' => array(
'start' => '36507026',
'end' => '36834397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-004'
),
'ENSMUST00000171521' => array(
'start' => '36507407',
'end' => '36810038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hs3st5-005'
),
'ENSMUST00000172357' => array(
'start' => '36506889',
'end' => '36702949',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hs3st5-003'
),
'ENSMUST00000092584' => array(
'start' => '37133375',
'end' => '37138920',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Marcks-001'
),
'ENSMUST00000157798' => array(
'start' => '36775785',
'end' => '36775931',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22554-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
'ENSG00000277443' => 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 => 'Bladder',
(int) 15 => 'Brain',
(int) 16 => 'Breast',
(int) 17 => 'Colon',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta'
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
'ENSG00000227502' => 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'
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
'ENSG00000175967' => array(
[maximum depth reached]
),
'ENSG00000196591' => array(
[maximum depth reached]
),
'ENSG00000216723' => array(
[maximum depth reached]
),
'ENSG00000218089' => array(
[maximum depth reached]
),
'ENSG00000249853' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Liver',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Brain',
(int) 25 => 'Colon',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Kidney',
(int) 43 => 'Liver',
(int) 44 => 'Muscle',
(int) 45 => 'Ovary',
(int) 46 => 'Breast',
(int) 47 => 'Colon',
(int) 48 => 'Lung',
(int) 49 => 'Brain',
(int) 50 => 'Heart',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Testis',
(int) 54 => 'Bladder',
(int) 55 => 'Brain',
(int) 56 => 'Breast',
(int) 57 => 'Colon',
(int) 58 => 'Kidney',
(int) 59 => 'Liver',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Heart',
(int) 66 => 'Kidney',
(int) 67 => 'Muscle',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Breast',
(int) 71 => 'Ovary',
(int) 72 => 'Testis'
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
'ENSMUSG00000019777' => array(
[maximum depth reached]
),
'ENSMUSG00000044499' => array(
[maximum depth reached]
),
'ENSMUSG00000069662' => 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 => 'Adipose',
(int) 15 => 'Breast',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Brain',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Adipose',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Ovary',
(int) 30 => 'Adipose',
(int) 31 => 'Adrenal',
(int) 32 => 'Bladder',
(int) 33 => 'Brain',
(int) 34 => 'Breast',
(int) 35 => 'Colon',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Bladder',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Muscle',
(int) 46 => 'Ovary',
(int) 47 => 'Testis',
(int) 48 => 'Adipose',
(int) 49 => 'Colon',
(int) 50 => 'Kidney',
(int) 51 => 'Ovary',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Lung',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Bladder',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Colon',
(int) 66 => 'Heart',
(int) 67 => 'Kidney',
(int) 68 => 'Liver',
(int) 69 => 'Lung',
(int) 70 => 'Muscle',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0005',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113863843',
'seq_end' => '113865068',
'region_length' => '1225',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
)
$gene_el = array(
'ENST00000612661' => array(
'Adipose' => array(
'average_FPKM' => '26.876',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '33.001',
'stddev_FPKM' => '0.00'
),
'Bladder' => array(
'average_FPKM' => '4.107',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '25.060',
'stddev_FPKM' => '4.99'
),
'Breast' => array(
'average_FPKM' => '17.879',
'stddev_FPKM' => '15.00'
),
'Colon' => array(
'average_FPKM' => '24.288',
'stddev_FPKM' => '3.09'
),
'Heart' => array(
'average_FPKM' => '4.216',
'stddev_FPKM' => '0.59'
),
'Kidney' => array(
'average_FPKM' => '3.975',
'stddev_FPKM' => '0.57'
),
'Liver' => array(
'average_FPKM' => '8.625',
'stddev_FPKM' => '5.80'
),
'Lung' => array(
'average_FPKM' => '24.952',
'stddev_FPKM' => '7.26'
),
'Muscle' => array(
'average_FPKM' => '1.795',
'stddev_FPKM' => '1.36'
),
'Ovary' => array(
'average_FPKM' => '24.464',
'stddev_FPKM' => '4.15'
),
'Placenta' => array(
'average_FPKM' => '31.039',
'stddev_FPKM' => '5.04'
),
'Testis' => array(
'average_FPKM' => '11.618',
'stddev_FPKM' => '9.98'
)
),
'ENST00000617290' => array(
'Bladder' => array(
'average_FPKM' => '12.884',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '13.932',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '12.026',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '38.943',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '4.920',
'stddev_FPKM' => '0.05'
),
'Kidney' => array(
'average_FPKM' => '4.830',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '14.237',
'stddev_FPKM' => '12.11'
),
'Lung' => array(
'average_FPKM' => '25.293',
'stddev_FPKM' => '11.00'
),
'Muscle' => array(
'average_FPKM' => '3.199',
'stddev_FPKM' => '0.56'
),
'Ovary' => array(
'average_FPKM' => '24.615',
'stddev_FPKM' => '3.67'
),
'Placenta' => array(
'average_FPKM' => '23.712',
'stddev_FPKM' => '5.02'
)
)
)
$gene_key = 'ENSG00000277443'
$is_first = false
$tran_el = array(
'Bladder' => array(
'average_FPKM' => '12.884',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '13.932',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '12.026',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '38.943',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '4.920',
'stddev_FPKM' => '0.05'
),
'Kidney' => array(
'average_FPKM' => '4.830',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '14.237',
'stddev_FPKM' => '12.11'
),
'Lung' => array(
'average_FPKM' => '25.293',
'stddev_FPKM' => '11.00'
),
'Muscle' => array(
'average_FPKM' => '3.199',
'stddev_FPKM' => '0.56'
),
'Ovary' => array(
'average_FPKM' => '24.615',
'stddev_FPKM' => '3.67'
),
'Placenta' => array(
'average_FPKM' => '23.712',
'stddev_FPKM' => '5.02'
)
)
$tran_key = 'ENST00000617290'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007P5_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000277443' => 'myristoylated alanine-rich protein kinase C substrate',
'ENSG00000227502' => 'long intergenic non-protein coding RNA 1268',
'ENSG00000175967' => 'uncharacterized FLJ34503',
'ENSG00000196591' => 'histone deacetylase 2',
'ENSG00000212333' => 'RNA, 5S ribosomal pseudogene 213',
'ENSG00000216471' => 'ribosomal protein SA pseudogene 43',
'ENSG00000216723' => 'nudix (nucleoside diphosphate linked moiety X)-type motif 19 pseudogene 3',
'ENSG00000218089' => 'DnaJ (Hsp40) homolog, subfamily A, member 1 pseudogene 4',
'ENSG00000221599' => null,
'ENSG00000228624' => null,
'ENSG00000249853' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000019777' => 'histone deacetylase 2',
'ENSMUSG00000044499' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000069662' => 'myristoylated alanine rich protein kinase C substrate',
'ENSMUSG00000088423' => 'predicted gene, 22554'
),
'gene_name_arr' => array(
'ENSG00000277443' => 'MARCKS',
'ENSG00000227502' => 'LINC01268',
'ENSG00000175967' => 'FLJ34503',
'ENSG00000196591' => 'HDAC2',
'ENSG00000212333' => 'RNA5SP213',
'ENSG00000216471' => 'RPSAP43',
'ENSG00000216723' => 'NUDT19P3',
'ENSG00000218089' => 'DNAJA1P4',
'ENSG00000221599' => 'AL136446.1',
'ENSG00000228624' => 'RP3-399L15.3',
'ENSG00000249853' => 'HS3ST5',
'ENSMUSG00000019777' => 'Hdac2',
'ENSMUSG00000044499' => 'Hs3st5',
'ENSMUSG00000069662' => 'Marcks',
'ENSMUSG00000088423' => 'Gm22554'
),
'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]
)
),
(int) 5 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 6 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 7 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 8 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 9 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 10 => 'Adrenal',
(int) 19 => 'Bladder',
(int) 29 => 'Brain',
(int) 46 => 'Breast',
(int) 62 => 'Colon',
(int) 79 => 'Heart',
(int) 92 => 'Kidney',
(int) 106 => 'Liver',
(int) 120 => 'Lung',
(int) 133 => 'Muscle',
(int) 143 => 'Ovary',
(int) 162 => 'Placenta',
(int) 173 => '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) 58,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000612661' => array(
'start' => '113857362',
'end' => '113863471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-001'
),
'ENST00000617290' => array(
'start' => '113857438',
'end' => '113861146',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-201'
),
'ENST00000434296' => array(
'start' => '113868013',
'end' => '113873351',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01268-001'
),
'ENST00000314481' => array(
'start' => '113904138',
'end' => '113921642',
'transcript_biotype' => 'antisense',
'transcript_name' => 'FLJ34503-001'
),
'ENST00000368632' => array(
'start' => '113940718',
'end' => '113971157',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-003'
),
'ENST00000425835' => array(
'start' => '113955927',
'end' => '113970878',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-002'
),
'ENST00000518690' => array(
'start' => '113956674',
'end' => '113970729',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-006'
),
'ENST00000518756' => array(
'start' => '113953400',
'end' => '113957286',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-016'
),
'ENST00000519065' => array(
'start' => '113933028',
'end' => '113971285',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-001'
),
'ENST00000519108' => array(
'start' => '113940718',
'end' => '113970724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-004'
),
'ENST00000520170' => array(
'start' => '113959610',
'end' => '113971137',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-013'
),
'ENST00000520746' => array(
'start' => '113945380',
'end' => '113949323',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-017'
),
'ENST00000520895' => array(
'start' => '113958662',
'end' => '113971126',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-010'
),
'ENST00000521163' => array(
'start' => '113956670',
'end' => '113971137',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-015'
),
'ENST00000521233' => array(
'start' => '113958427',
'end' => '113971136',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-014'
),
'ENST00000521610' => array(
'start' => '113956119',
'end' => '113970495',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-008'
),
'ENST00000522371' => array(
'start' => '113956629',
'end' => '114011308',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-012'
),
'ENST00000523240' => array(
'start' => '113956690',
'end' => '113970710',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-007'
),
'ENST00000523334' => array(
'start' => '113940718',
'end' => '113956602',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-005'
),
'ENST00000523628' => array(
'start' => '113956110',
'end' => '113968530',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-011'
),
'ENST00000524334' => array(
'start' => '113958684',
'end' => '113971139',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-009'
),
'ENST00000391031' => array(
'start' => '114220681',
'end' => '114220786',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP213-201'
),
'ENST00000402237' => array(
'start' => '114084168',
'end' => '114084792',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPSAP43-001'
),
'ENST00000404698' => array(
'start' => '114019621',
'end' => '114020483',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NUDT19P3-001'
),
'ENST00000406473' => array(
'start' => '114349483',
'end' => '114350648',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'DNAJA1P4-001'
),
'ENST00000408672' => array(
'start' => '114277385',
'end' => '114277478',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL136446.1-201'
),
'ENST00000421891' => array(
'start' => '113995144',
'end' => '113999798',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-010'
),
'ENST00000431399' => array(
'start' => '114112386',
'end' => '114132303',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-007'
),
'ENST00000436876' => array(
'start' => '113970106',
'end' => '113995644',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-014'
),
'ENST00000449620' => array(
'start' => '113970235',
'end' => '113995802',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-015'
),
'ENST00000451415' => array(
'start' => '114230141',
'end' => '114239199',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-005'
),
'ENST00000517965' => array(
'start' => '114448960',
'end' => '114456634',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-002'
),
'ENST00000518470' => array(
'start' => '114281812',
'end' => '114468574',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-003'
),
'ENST00000519104' => array(
'start' => '113969701',
'end' => '114340738',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-004'
),
'ENST00000519270' => array(
'start' => '113995975',
'end' => '114059788',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-009'
),
'ENST00000519629' => array(
'start' => '113995244',
'end' => '113995915',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-017'
),
'ENST00000520034' => array(
'start' => '114084569',
'end' => '114143918',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-008'
),
'ENST00000520554' => array(
'start' => '113969954',
'end' => '113993463',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-013'
),
'ENST00000520891' => array(
'start' => '113971496',
'end' => '113995815',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-012'
),
'ENST00000521888' => array(
'start' => '113971495',
'end' => '113993356',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-016'
),
'ENST00000522697' => array(
'start' => '114425612',
'end' => '114471705',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-001'
),
'ENST00000522844' => array(
'start' => '113971518',
'end' => '113995869',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-011'
),
'ENST00000523087' => array(
'start' => '113995955',
'end' => '114235716',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-006'
),
'ENST00000606947' => array(
'start' => '114231348',
'end' => '114251919',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-018'
),
'ENST00000312719' => array(
'start' => '114055586',
'end' => '114343045',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-001'
),
'ENST00000411826' => array(
'start' => '114055586',
'end' => '114062877',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-201'
),
'ENST00000441954' => array(
'start' => '114167477',
'end' => '114168450',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'HS3ST5-002'
),
'ENSMUST00000019911' => array(
'start' => '36974544',
'end' => '37001889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-001'
),
'ENSMUST00000105510' => array(
'start' => '36974570',
'end' => '36996111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-002'
),
'ENSMUST00000123010' => array(
'start' => '36998172',
'end' => '37001611',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hdac2-004'
),
'ENSMUST00000128031' => array(
'start' => '36991766',
'end' => '37001888',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hdac2-003'
),
'ENSMUST00000058738' => array(
'start' => '36506819',
'end' => '36834389',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-001'
),
'ENSMUST00000167191' => array(
'start' => '36506814',
'end' => '36833773',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-002'
),
'ENSMUST00000168572' => array(
'start' => '36507026',
'end' => '36834397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-004'
),
'ENSMUST00000171521' => array(
'start' => '36507407',
'end' => '36810038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hs3st5-005'
),
'ENSMUST00000172357' => array(
'start' => '36506889',
'end' => '36702949',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hs3st5-003'
),
'ENSMUST00000092584' => array(
'start' => '37133375',
'end' => '37138920',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Marcks-001'
),
'ENSMUST00000157798' => array(
'start' => '36775785',
'end' => '36775931',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22554-201'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
'ENSG00000277443' => 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 => 'Bladder',
(int) 15 => 'Brain',
(int) 16 => 'Breast',
(int) 17 => 'Colon',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta'
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
'ENSG00000227502' => 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'
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
'ENSG00000175967' => array(
[maximum depth reached]
),
'ENSG00000196591' => array(
[maximum depth reached]
),
'ENSG00000216723' => array(
[maximum depth reached]
),
'ENSG00000218089' => array(
[maximum depth reached]
),
'ENSG00000249853' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Liver',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Brain',
(int) 25 => 'Colon',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Kidney',
(int) 43 => 'Liver',
(int) 44 => 'Muscle',
(int) 45 => 'Ovary',
(int) 46 => 'Breast',
(int) 47 => 'Colon',
(int) 48 => 'Lung',
(int) 49 => 'Brain',
(int) 50 => 'Heart',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Testis',
(int) 54 => 'Bladder',
(int) 55 => 'Brain',
(int) 56 => 'Breast',
(int) 57 => 'Colon',
(int) 58 => 'Kidney',
(int) 59 => 'Liver',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Heart',
(int) 66 => 'Kidney',
(int) 67 => 'Muscle',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Breast',
(int) 71 => 'Ovary',
(int) 72 => 'Testis'
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
'ENSMUSG00000019777' => array(
[maximum depth reached]
),
'ENSMUSG00000044499' => array(
[maximum depth reached]
),
'ENSMUSG00000069662' => 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 => 'Adipose',
(int) 15 => 'Breast',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Brain',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Adipose',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Ovary',
(int) 30 => 'Adipose',
(int) 31 => 'Adrenal',
(int) 32 => 'Bladder',
(int) 33 => 'Brain',
(int) 34 => 'Breast',
(int) 35 => 'Colon',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Bladder',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Muscle',
(int) 46 => 'Ovary',
(int) 47 => 'Testis',
(int) 48 => 'Adipose',
(int) 49 => 'Colon',
(int) 50 => 'Kidney',
(int) 51 => 'Ovary',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Lung',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Bladder',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Colon',
(int) 66 => 'Heart',
(int) 67 => 'Kidney',
(int) 68 => 'Liver',
(int) 69 => 'Lung',
(int) 70 => 'Muscle',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000277443' => 'myristoylated alanine-rich protein kinase C substrate',
'ENSG00000227502' => 'long intergenic non-protein coding RNA 1268',
'ENSG00000175967' => 'uncharacterized FLJ34503',
'ENSG00000196591' => 'histone deacetylase 2',
'ENSG00000212333' => 'RNA, 5S ribosomal pseudogene 213',
'ENSG00000216471' => 'ribosomal protein SA pseudogene 43',
'ENSG00000216723' => 'nudix (nucleoside diphosphate linked moiety X)-type motif 19 pseudogene 3',
'ENSG00000218089' => 'DnaJ (Hsp40) homolog, subfamily A, member 1 pseudogene 4',
'ENSG00000221599' => null,
'ENSG00000228624' => null,
'ENSG00000249853' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000019777' => 'histone deacetylase 2',
'ENSMUSG00000044499' => 'heparan sulfate (glucosamine) 3-O-sulfotransferase 5',
'ENSMUSG00000069662' => 'myristoylated alanine rich protein kinase C substrate',
'ENSMUSG00000088423' => 'predicted gene, 22554'
)
$gene_name_arr = array(
'ENSG00000277443' => 'MARCKS',
'ENSG00000227502' => 'LINC01268',
'ENSG00000175967' => 'FLJ34503',
'ENSG00000196591' => 'HDAC2',
'ENSG00000212333' => 'RNA5SP213',
'ENSG00000216471' => 'RPSAP43',
'ENSG00000216723' => 'NUDT19P3',
'ENSG00000218089' => 'DNAJA1P4',
'ENSG00000221599' => 'AL136446.1',
'ENSG00000228624' => 'RP3-399L15.3',
'ENSG00000249853' => 'HS3ST5',
'ENSMUSG00000019777' => 'Hdac2',
'ENSMUSG00000044499' => 'Hs3st5',
'ENSMUSG00000069662' => 'Marcks',
'ENSMUSG00000088423' => 'Gm22554'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0001',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861204',
'seq_end' => '113861604',
'region_length' => '400',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0002',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861604',
'seq_end' => '113861983',
'region_length' => '379',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0003',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113861984',
'seq_end' => '113862415',
'region_length' => '431',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0004',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113862417',
'seq_end' => '113863825',
'region_length' => '1408',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0005',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113863843',
'seq_end' => '113865068',
'region_length' => '1225',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0006',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113865072',
'seq_end' => '113867176',
'region_length' => '2104',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 6 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0007',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113867176',
'seq_end' => '113884878',
'region_length' => '17702',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 7 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0008',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113884878',
'seq_end' => '113887000',
'region_length' => '2122',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 8 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0009',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113887002',
'seq_end' => '114451190',
'region_length' => '564188',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
),
(int) 9 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_000A',
'tax_id' => '10090',
'chromosome' => '10',
'seq_start' => '36379394',
'seq_end' => '37135425',
'region_length' => '756031',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 10 => 'Adrenal',
(int) 19 => 'Bladder',
(int) 29 => 'Brain',
(int) 46 => 'Breast',
(int) 62 => 'Colon',
(int) 79 => 'Heart',
(int) 92 => 'Kidney',
(int) 106 => 'Liver',
(int) 120 => 'Lung',
(int) 133 => 'Muscle',
(int) 143 => 'Ovary',
(int) 162 => 'Placenta',
(int) 173 => '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) 58
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000612661' => array(
'start' => '113857362',
'end' => '113863471',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-001'
),
'ENST00000617290' => array(
'start' => '113857438',
'end' => '113861146',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MARCKS-201'
),
'ENST00000434296' => array(
'start' => '113868013',
'end' => '113873351',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01268-001'
),
'ENST00000314481' => array(
'start' => '113904138',
'end' => '113921642',
'transcript_biotype' => 'antisense',
'transcript_name' => 'FLJ34503-001'
),
'ENST00000368632' => array(
'start' => '113940718',
'end' => '113971157',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-003'
),
'ENST00000425835' => array(
'start' => '113955927',
'end' => '113970878',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-002'
),
'ENST00000518690' => array(
'start' => '113956674',
'end' => '113970729',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-006'
),
'ENST00000518756' => array(
'start' => '113953400',
'end' => '113957286',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-016'
),
'ENST00000519065' => array(
'start' => '113933028',
'end' => '113971285',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-001'
),
'ENST00000519108' => array(
'start' => '113940718',
'end' => '113970724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-004'
),
'ENST00000520170' => array(
'start' => '113959610',
'end' => '113971137',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-013'
),
'ENST00000520746' => array(
'start' => '113945380',
'end' => '113949323',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-017'
),
'ENST00000520895' => array(
'start' => '113958662',
'end' => '113971126',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-010'
),
'ENST00000521163' => array(
'start' => '113956670',
'end' => '113971137',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-015'
),
'ENST00000521233' => array(
'start' => '113958427',
'end' => '113971136',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-014'
),
'ENST00000521610' => array(
'start' => '113956119',
'end' => '113970495',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-008'
),
'ENST00000522371' => array(
'start' => '113956629',
'end' => '114011308',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-012'
),
'ENST00000523240' => array(
'start' => '113956690',
'end' => '113970710',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-007'
),
'ENST00000523334' => array(
'start' => '113940718',
'end' => '113956602',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'HDAC2-005'
),
'ENST00000523628' => array(
'start' => '113956110',
'end' => '113968530',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-011'
),
'ENST00000524334' => array(
'start' => '113958684',
'end' => '113971139',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HDAC2-009'
),
'ENST00000391031' => array(
'start' => '114220681',
'end' => '114220786',
'transcript_biotype' => 'rRNA',
'transcript_name' => 'RNA5SP213-201'
),
'ENST00000402237' => array(
'start' => '114084168',
'end' => '114084792',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RPSAP43-001'
),
'ENST00000404698' => array(
'start' => '114019621',
'end' => '114020483',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'NUDT19P3-001'
),
'ENST00000406473' => array(
'start' => '114349483',
'end' => '114350648',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'DNAJA1P4-001'
),
'ENST00000408672' => array(
'start' => '114277385',
'end' => '114277478',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL136446.1-201'
),
'ENST00000421891' => array(
'start' => '113995144',
'end' => '113999798',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-010'
),
'ENST00000431399' => array(
'start' => '114112386',
'end' => '114132303',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-007'
),
'ENST00000436876' => array(
'start' => '113970106',
'end' => '113995644',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-014'
),
'ENST00000449620' => array(
'start' => '113970235',
'end' => '113995802',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-015'
),
'ENST00000451415' => array(
'start' => '114230141',
'end' => '114239199',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-005'
),
'ENST00000517965' => array(
'start' => '114448960',
'end' => '114456634',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-002'
),
'ENST00000518470' => array(
'start' => '114281812',
'end' => '114468574',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-003'
),
'ENST00000519104' => array(
'start' => '113969701',
'end' => '114340738',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-004'
),
'ENST00000519270' => array(
'start' => '113995975',
'end' => '114059788',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-009'
),
'ENST00000519629' => array(
'start' => '113995244',
'end' => '113995915',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-017'
),
'ENST00000520034' => array(
'start' => '114084569',
'end' => '114143918',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-008'
),
'ENST00000520554' => array(
'start' => '113969954',
'end' => '113993463',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-013'
),
'ENST00000520891' => array(
'start' => '113971496',
'end' => '113995815',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-012'
),
'ENST00000521888' => array(
'start' => '113971495',
'end' => '113993356',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-016'
),
'ENST00000522697' => array(
'start' => '114425612',
'end' => '114471705',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-001'
),
'ENST00000522844' => array(
'start' => '113971518',
'end' => '113995869',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-011'
),
'ENST00000523087' => array(
'start' => '113995955',
'end' => '114235716',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-006'
),
'ENST00000606947' => array(
'start' => '114231348',
'end' => '114251919',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP3-399L15.3-018'
),
'ENST00000312719' => array(
'start' => '114055586',
'end' => '114343045',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-001'
),
'ENST00000411826' => array(
'start' => '114055586',
'end' => '114062877',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'HS3ST5-201'
),
'ENST00000441954' => array(
'start' => '114167477',
'end' => '114168450',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'HS3ST5-002'
),
'ENSMUST00000019911' => array(
'start' => '36974544',
'end' => '37001889',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-001'
),
'ENSMUST00000105510' => array(
'start' => '36974570',
'end' => '36996111',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hdac2-002'
),
'ENSMUST00000123010' => array(
'start' => '36998172',
'end' => '37001611',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hdac2-004'
),
'ENSMUST00000128031' => array(
'start' => '36991766',
'end' => '37001888',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hdac2-003'
),
'ENSMUST00000058738' => array(
'start' => '36506819',
'end' => '36834389',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-001'
),
'ENSMUST00000167191' => array(
'start' => '36506814',
'end' => '36833773',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-002'
),
'ENSMUST00000168572' => array(
'start' => '36507026',
'end' => '36834397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Hs3st5-004'
),
'ENSMUST00000171521' => array(
'start' => '36507407',
'end' => '36810038',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Hs3st5-005'
),
'ENSMUST00000172357' => array(
'start' => '36506889',
'end' => '36702949',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Hs3st5-003'
),
'ENSMUST00000092584' => array(
'start' => '37133375',
'end' => '37138920',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Marcks-001'
),
'ENSMUST00000157798' => array(
'start' => '36775785',
'end' => '36775931',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22554-201'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0007P5_0004' => array(
'genes_in_region' => array(
'ENSG00000277443' => 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 => 'Bladder',
(int) 15 => 'Brain',
(int) 16 => 'Breast',
(int) 17 => 'Colon',
(int) 18 => 'Heart',
(int) 19 => 'Kidney',
(int) 20 => 'Liver',
(int) 21 => 'Lung',
(int) 22 => 'Muscle',
(int) 23 => 'Ovary',
(int) 24 => 'Placenta'
)
),
'CIL_0007P5_0007' => array(
'genes_in_region' => array(
'ENSG00000227502' => 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'
)
),
'CIL_0007P5_0009' => array(
'genes_in_region' => array(
'ENSG00000175967' => array(
[maximum depth reached]
),
'ENSG00000196591' => array(
[maximum depth reached]
),
'ENSG00000216723' => array(
[maximum depth reached]
),
'ENSG00000218089' => array(
[maximum depth reached]
),
'ENSG00000249853' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Brain',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Liver',
(int) 6 => 'Lung',
(int) 7 => 'Ovary',
(int) 8 => 'Placenta',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Brain',
(int) 25 => 'Colon',
(int) 26 => 'Kidney',
(int) 27 => 'Liver',
(int) 28 => 'Adipose',
(int) 29 => 'Adrenal',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Kidney',
(int) 34 => 'Liver',
(int) 35 => 'Lung',
(int) 36 => 'Muscle',
(int) 37 => 'Ovary',
(int) 38 => 'Placenta',
(int) 39 => 'Testis',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Kidney',
(int) 43 => 'Liver',
(int) 44 => 'Muscle',
(int) 45 => 'Ovary',
(int) 46 => 'Breast',
(int) 47 => 'Colon',
(int) 48 => 'Lung',
(int) 49 => 'Brain',
(int) 50 => 'Heart',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Testis',
(int) 54 => 'Bladder',
(int) 55 => 'Brain',
(int) 56 => 'Breast',
(int) 57 => 'Colon',
(int) 58 => 'Kidney',
(int) 59 => 'Liver',
(int) 60 => 'Lung',
(int) 61 => 'Ovary',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Colon',
(int) 65 => 'Heart',
(int) 66 => 'Kidney',
(int) 67 => 'Muscle',
(int) 68 => 'Ovary',
(int) 69 => 'Placenta',
(int) 70 => 'Breast',
(int) 71 => 'Ovary',
(int) 72 => 'Testis'
)
),
'CIL_0007P5_000A' => array(
'genes_in_region' => array(
'ENSMUSG00000019777' => array(
[maximum depth reached]
),
'ENSMUSG00000044499' => array(
[maximum depth reached]
),
'ENSMUSG00000069662' => 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 => 'Adipose',
(int) 15 => 'Breast',
(int) 16 => 'Liver',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Brain',
(int) 20 => 'Ovary',
(int) 21 => 'Placenta',
(int) 22 => 'Testis',
(int) 23 => 'Adipose',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Ovary',
(int) 30 => 'Adipose',
(int) 31 => 'Adrenal',
(int) 32 => 'Bladder',
(int) 33 => 'Brain',
(int) 34 => 'Breast',
(int) 35 => 'Colon',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Bladder',
(int) 43 => 'Brain',
(int) 44 => 'Liver',
(int) 45 => 'Muscle',
(int) 46 => 'Ovary',
(int) 47 => 'Testis',
(int) 48 => 'Adipose',
(int) 49 => 'Colon',
(int) 50 => 'Kidney',
(int) 51 => 'Ovary',
(int) 52 => 'Adrenal',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Lung',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Bladder',
(int) 63 => 'Brain',
(int) 64 => 'Breast',
(int) 65 => 'Colon',
(int) 66 => 'Heart',
(int) 67 => 'Kidney',
(int) 68 => 'Liver',
(int) 69 => 'Lung',
(int) 70 => 'Muscle',
(int) 71 => 'Ovary',
(int) 72 => 'Placenta',
(int) 73 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007P5_0005',
'tax_id' => '9606',
'chromosome' => '6',
'seq_start' => '113863843',
'seq_end' => '113865068',
'region_length' => '1225',
'region_type' => 'UCNEbase',
'el_id' => 'MARCKS'
)
)
$gene_el = array(
'ENST00000612661' => array(
'Adipose' => array(
'average_FPKM' => '26.876',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '33.001',
'stddev_FPKM' => '0.00'
),
'Bladder' => array(
'average_FPKM' => '4.107',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '25.060',
'stddev_FPKM' => '4.99'
),
'Breast' => array(
'average_FPKM' => '17.879',
'stddev_FPKM' => '15.00'
),
'Colon' => array(
'average_FPKM' => '24.288',
'stddev_FPKM' => '3.09'
),
'Heart' => array(
'average_FPKM' => '4.216',
'stddev_FPKM' => '0.59'
),
'Kidney' => array(
'average_FPKM' => '3.975',
'stddev_FPKM' => '0.57'
),
'Liver' => array(
'average_FPKM' => '8.625',
'stddev_FPKM' => '5.80'
),
'Lung' => array(
'average_FPKM' => '24.952',
'stddev_FPKM' => '7.26'
),
'Muscle' => array(
'average_FPKM' => '1.795',
'stddev_FPKM' => '1.36'
),
'Ovary' => array(
'average_FPKM' => '24.464',
'stddev_FPKM' => '4.15'
),
'Placenta' => array(
'average_FPKM' => '31.039',
'stddev_FPKM' => '5.04'
),
'Testis' => array(
'average_FPKM' => '11.618',
'stddev_FPKM' => '9.98'
)
),
'ENST00000617290' => array(
'Bladder' => array(
'average_FPKM' => '12.884',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '13.932',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '12.026',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '38.943',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '4.920',
'stddev_FPKM' => '0.05'
),
'Kidney' => array(
'average_FPKM' => '4.830',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '14.237',
'stddev_FPKM' => '12.11'
),
'Lung' => array(
'average_FPKM' => '25.293',
'stddev_FPKM' => '11.00'
),
'Muscle' => array(
'average_FPKM' => '3.199',
'stddev_FPKM' => '0.56'
),
'Ovary' => array(
'average_FPKM' => '24.615',
'stddev_FPKM' => '3.67'
),
'Placenta' => array(
'average_FPKM' => '23.712',
'stddev_FPKM' => '5.02'
)
)
)
$gene_key = 'ENSG00000277443'
$is_first = false
$tran_el = array(
'Bladder' => array(
'average_FPKM' => '12.884',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '13.932',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '12.026',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '38.943',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '4.920',
'stddev_FPKM' => '0.05'
),
'Kidney' => array(
'average_FPKM' => '4.830',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '14.237',
'stddev_FPKM' => '12.11'
),
'Lung' => array(
'average_FPKM' => '25.293',
'stddev_FPKM' => '11.00'
),
'Muscle' => array(
'average_FPKM' => '3.199',
'stddev_FPKM' => '0.56'
),
'Ovary' => array(
'average_FPKM' => '24.615',
'stddev_FPKM' => '3.67'
),
'Placenta' => array(
'average_FPKM' => '23.712',
'stddev_FPKM' => '5.02'
)
)
$tran_key = 'ENST00000617290'
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
(MARCKS)