Notice (8): Undefined index: CIL_0007MP_0004 [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_0007MP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000088448' => 'ankyrin repeat domain 10',
'ENSG00000102606' => 'Rho guanine nucleotide exchange factor (GEF) 7',
'ENSG00000153495' => 'testis expressed 29',
'ENSG00000225760' => 'long intergenic non-protein coding RNA 431',
'ENSG00000225870' => 'long intergenic non-protein coding RNA 368',
'ENSG00000227105' => 'poly (ADP-ribose) polymerase family, member 1 pseudogene 1',
'ENSG00000227352' => 'ARHGEF7 antisense RNA 1',
'ENSG00000233644' => 'ARHGEF7 intronic transcript 1 (non-protein coding)',
'ENSG00000235875' => 'ARHGEF7 antisense RNA 2',
'ENSG00000274614' => null,
'ENSG00000275989' => null,
'ENSG00000277767' => null,
'ENSMUSG00000031508' => 'ankyrin repeat domain 10',
'ENSMUSG00000031509' => 'RIKEN cDNA 1700016D06 gene',
'ENSMUSG00000031510' => 'RIKEN cDNA 1700128E19 gene',
'ENSMUSG00000031511' => 'Rho guanine nucleotide exchange factor (GEF7)',
'ENSMUSG00000031512' => 'testis expressed 29',
'ENSMUSG00000086500' => 'predicted gene 15875',
'ENSMUSG00000093319' => 'predicted gene, 27854'
),
'gene_name_arr' => array(
'ENSG00000088448' => 'ANKRD10',
'ENSG00000102606' => 'ARHGEF7',
'ENSG00000153495' => 'TEX29',
'ENSG00000225760' => 'LINC00431',
'ENSG00000225870' => 'LINC00368',
'ENSG00000227105' => 'PARP1P1',
'ENSG00000227352' => 'ARHGEF7-AS1',
'ENSG00000233644' => 'ARHGEF7-IT1',
'ENSG00000235875' => 'ARHGEF7-AS2',
'ENSG00000274614' => 'RP11-17E4.1',
'ENSG00000275989' => 'RP11-365P13.6',
'ENSG00000277767' => 'RP11-365P13.5',
'ENSMUSG00000031508' => 'Ankrd10',
'ENSMUSG00000031509' => '1700016D06Rik',
'ENSMUSG00000031510' => '1700128E19Rik',
'ENSMUSG00000031511' => 'Arhgef7',
'ENSMUSG00000031512' => 'Tex29',
'ENSMUSG00000086500' => 'Gm15875',
'ENSMUSG00000093319' => 'Gm27854'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 34 => 'Brain',
(int) 52 => 'Breast',
(int) 68 => 'Colon',
(int) 78 => 'Heart',
(int) 91 => 'Kidney',
(int) 103 => 'Liver',
(int) 119 => 'Lung',
(int) 135 => 'Muscle',
(int) 144 => 'Ovary',
(int) 161 => 'Placenta',
(int) 177 => '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) 61,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000267339' => array(
'start' => '110878540',
'end' => '110915069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-003'
),
'ENST00000310847' => array(
'start' => '110892692',
'end' => '110915006',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-004'
),
'ENST00000460846' => array(
'start' => '110905023',
'end' => '110914803',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-010'
),
'ENST00000463156' => array(
'start' => '110904031',
'end' => '110906115',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-001'
),
'ENST00000464579' => array(
'start' => '110903475',
'end' => '110906095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-009'
),
'ENST00000465753' => array(
'start' => '110892957',
'end' => '110915037',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ANKRD10-006'
),
'ENST00000475809' => array(
'start' => '110893028',
'end' => '110900739',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-007'
),
'ENST00000485844' => array(
'start' => '110879768',
'end' => '110893082',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-002'
),
'ENST00000489973' => array(
'start' => '110883709',
'end' => '110910746',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-005'
),
'ENST00000494859' => array(
'start' => '110893197',
'end' => '110914617',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-008'
),
'ENST00000603993' => array(
'start' => '110883195',
'end' => '110893132',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-011'
),
'ENST00000218789' => array(
'start' => '111153714',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-001'
),
'ENST00000317133' => array(
'start' => '111114619',
'end' => '111293436',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-008'
),
'ENST00000375723' => array(
'start' => '111205289',
'end' => '111295192',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-005'
),
'ENST00000375736' => array(
'start' => '111153738',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-007'
),
'ENST00000375739' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-201'
),
'ENST00000375741' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-202'
),
'ENST00000422836' => array(
'start' => '111115419',
'end' => '111116575',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-017'
),
'ENST00000426073' => array(
'start' => '111186854',
'end' => '111305737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-004'
),
'ENST00000426768' => array(
'start' => '111203060',
'end' => '111217885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-009'
),
'ENST00000449979' => array(
'start' => '111115428',
'end' => '111217880',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-003'
),
'ENST00000466143' => array(
'start' => '111153689',
'end' => '111283226',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-013'
),
'ENST00000467053' => array(
'start' => '111184938',
'end' => '111217865',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-016'
),
'ENST00000469877' => array(
'start' => '111153689',
'end' => '111283298',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ARHGEF7-012'
),
'ENST00000478679' => array(
'start' => '111241220',
'end' => '111292458',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-011'
),
'ENST00000483189' => array(
'start' => '111241145',
'end' => '111276031',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-010'
),
'ENST00000483540' => array(
'start' => '111114559',
'end' => '111153962',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-014'
),
'ENST00000491688' => array(
'start' => '111282828',
'end' => '111286236',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-006'
),
'ENST00000491775' => array(
'start' => '111153647',
'end' => '111217800',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-015'
),
'ENST00000544132' => array(
'start' => '111275651',
'end' => '111281109',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-018'
),
'ENST00000283547' => array(
'start' => '111320668',
'end' => '111344247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEX29-002'
),
'ENST00000497241' => array(
'start' => '111316184',
'end' => '111344249',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'TEX29-001'
),
'ENST00000440735' => array(
'start' => '110983307',
'end' => '110990564',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00431-001'
),
'ENST00000422994' => array(
'start' => '111095838',
'end' => '111103097',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00368-001'
),
'ENST00000413631' => array(
'start' => '110936759',
'end' => '110939784',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'PARP1P1-001'
),
'ENST00000435037' => array(
'start' => '111144305',
'end' => '111144733',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS1-001'
),
'ENST00000423329' => array(
'start' => '111122652',
'end' => '111144264',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'ARHGEF7-IT1-001'
),
'ENST00000425094' => array(
'start' => '111113812',
'end' => '111115678',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS2-001'
),
'ENST00000619088' => array(
'start' => '111182111',
'end' => '111182692',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-17E4.1-001'
),
'ENST00000615151' => array(
'start' => '110952722',
'end' => '110952811',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-365P13.6-001'
),
'ENST00000620246' => array(
'start' => '110916004',
'end' => '110917827',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-365P13.5-001'
),
'ENSMUST00000033905' => array(
'start' => '11611583',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-201'
),
'ENSMUST00000169782' => array(
'start' => '11614151',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-202'
),
'ENSMUST00000033906' => array(
'start' => '11654924',
'end' => '11678750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-001'
),
'ENSMUST00000190741' => array(
'start' => '11655479',
'end' => '11701063',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-002'
),
'ENSMUST00000190787' => array(
'start' => '11655478',
'end' => '11660735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700016D06Rik-003'
),
'ENSMUST00000191350' => array(
'start' => '11655480',
'end' => '11662604',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-004'
),
'ENSMUST00000134409' => array(
'start' => '11713264',
'end' => '11722620',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700128E19Rik-001'
),
'ENSMUST00000033908' => array(
'start' => '11728105',
'end' => '11823061',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-005'
),
'ENSMUST00000074856' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-001'
),
'ENSMUST00000098938' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-002'
),
'ENSMUST00000110904' => array(
'start' => '11782641',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-003'
),
'ENSMUST00000110909' => array(
'start' => '11728105',
'end' => '11827149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-004'
),
'ENSMUST00000151225' => array(
'start' => '11830238',
'end' => '11832300',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-006'
),
'ENSMUST00000154204' => array(
'start' => '11812362',
'end' => '11816345',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-007'
),
'ENSMUST00000033909' => array(
'start' => '11840474',
'end' => '11855761',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-001'
),
'ENSMUST00000132536' => array(
'start' => '11842061',
'end' => '11855757',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-002'
),
'ENSMUST00000144007' => array(
'start' => '11840611',
'end' => '11844158',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-003'
),
'ENSMUST00000166638' => array(
'start' => '11840919',
'end' => '11855705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-201'
),
'ENSMUST00000152264' => array(
'start' => '11838978',
'end' => '11840400',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm15875-001'
),
'ENSMUST00000175578' => array(
'start' => '11696615',
'end' => '11696858',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm27854-201'
)
),
'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_0007MP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007MP_0001' => array(
'genes_in_region' => array(
'ENSG00000088448' => array(
[maximum depth reached]
),
'ENSG00000102606' => array(
[maximum depth reached]
),
'ENSG00000153495' => array(
[maximum depth reached]
),
'ENSG00000225760' => array(
[maximum depth reached]
),
'ENSG00000225870' => array(
[maximum depth reached]
),
'ENSG00000227105' => array(
[maximum depth reached]
),
'ENSG00000227352' => array(
[maximum depth reached]
),
'ENSG00000233644' => array(
[maximum depth reached]
),
'ENSG00000274614' => array(
[maximum depth reached]
),
'ENSG00000275989' => array(
[maximum depth reached]
),
'ENSG00000277767' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Lung',
(int) 13 => 'Muscle',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Placenta',
(int) 18 => 'Brain',
(int) 19 => 'Brain',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Liver',
(int) 23 => 'Ovary',
(int) 24 => 'Testis',
(int) 25 => 'Adipose',
(int) 26 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Heart',
(int) 31 => 'Kidney',
(int) 32 => 'Liver',
(int) 33 => 'Lung',
(int) 34 => 'Muscle',
(int) 35 => 'Ovary',
(int) 36 => 'Placenta',
(int) 37 => 'Testis',
(int) 38 => 'Testis',
(int) 39 => 'Brain',
(int) 40 => 'Lung',
(int) 41 => 'Heart',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Breast',
(int) 53 => 'Kidney',
(int) 54 => 'Lung',
(int) 55 => 'Brain',
(int) 56 => 'Placenta',
(int) 57 => 'Adipose',
(int) 58 => 'Breast',
(int) 59 => 'Testis',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Brain',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Muscle',
(int) 69 => 'Testis',
(int) 70 => 'Adipose',
(int) 71 => 'Bladder',
(int) 72 => 'Brain',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Lung',
(int) 76 => 'Testis',
(int) 77 => 'Adipose',
(int) 78 => 'Adrenal',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Colon',
(int) 82 => 'Heart',
(int) 83 => 'Liver',
(int) 84 => 'Placenta',
(int) 85 => 'Testis',
(int) 86 => 'Adrenal',
(int) 87 => 'Bladder',
(int) 88 => 'Brain',
(int) 89 => 'Breast',
(int) 90 => 'Heart',
(int) 91 => 'Kidney',
(int) 92 => 'Liver',
(int) 93 => 'Lung',
(int) 94 => 'Muscle',
(int) 95 => 'Ovary',
(int) 96 => 'Testis',
(int) 97 => 'Testis',
(int) 98 => 'Adipose',
(int) 99 => 'Adrenal',
(int) 100 => 'Bladder',
(int) 101 => 'Brain',
(int) 102 => 'Breast',
(int) 103 => 'Colon',
(int) 104 => 'Heart',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Lung',
(int) 108 => 'Muscle',
(int) 109 => 'Ovary',
(int) 110 => 'Placenta',
(int) 111 => 'Testis'
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031508' => array(
[maximum depth reached]
),
'ENSMUSG00000031509' => array(
[maximum depth reached]
),
'ENSMUSG00000031510' => array(
[maximum depth reached]
),
'ENSMUSG00000031512' => array(
[maximum depth reached]
),
'ENSMUSG00000086500' => array(
[maximum depth reached]
),
'ENSMUSG00000093319' => 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 => 'Testis',
(int) 19 => 'Adipose',
(int) 20 => 'Kidney',
(int) 21 => 'Liver',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Testis',
(int) 25 => 'Placenta',
(int) 26 => 'Testis',
(int) 27 => 'Adipose',
(int) 28 => 'Bladder',
(int) 29 => 'Brain',
(int) 30 => 'Heart',
(int) 31 => 'Liver',
(int) 32 => 'Lung',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Adrenal',
(int) 38 => 'Bladder',
(int) 39 => 'Brain',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Heart',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Muscle',
(int) 47 => 'Ovary',
(int) 48 => 'Placenta',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Kidney',
(int) 69 => 'Testis',
(int) 70 => 'Kidney',
(int) 71 => 'Liver',
(int) 72 => 'Ovary',
(int) 73 => 'Placenta',
(int) 74 => 'Bladder',
(int) 75 => 'Breast',
(int) 76 => 'Bladder',
(int) 77 => 'Lung',
(int) 78 => 'Ovary',
(int) 79 => 'Testis',
(int) 80 => 'Brain',
(int) 81 => 'Ovary',
(int) 82 => 'Testis',
(int) 83 => 'Adipose',
(int) 84 => 'Brain',
(int) 85 => 'Breast',
(int) 86 => 'Liver',
(int) 87 => 'Lung',
(int) 88 => 'Ovary',
(int) 89 => 'Placenta',
(int) 90 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000088448' => 'ankyrin repeat domain 10',
'ENSG00000102606' => 'Rho guanine nucleotide exchange factor (GEF) 7',
'ENSG00000153495' => 'testis expressed 29',
'ENSG00000225760' => 'long intergenic non-protein coding RNA 431',
'ENSG00000225870' => 'long intergenic non-protein coding RNA 368',
'ENSG00000227105' => 'poly (ADP-ribose) polymerase family, member 1 pseudogene 1',
'ENSG00000227352' => 'ARHGEF7 antisense RNA 1',
'ENSG00000233644' => 'ARHGEF7 intronic transcript 1 (non-protein coding)',
'ENSG00000235875' => 'ARHGEF7 antisense RNA 2',
'ENSG00000274614' => null,
'ENSG00000275989' => null,
'ENSG00000277767' => null,
'ENSMUSG00000031508' => 'ankyrin repeat domain 10',
'ENSMUSG00000031509' => 'RIKEN cDNA 1700016D06 gene',
'ENSMUSG00000031510' => 'RIKEN cDNA 1700128E19 gene',
'ENSMUSG00000031511' => 'Rho guanine nucleotide exchange factor (GEF7)',
'ENSMUSG00000031512' => 'testis expressed 29',
'ENSMUSG00000086500' => 'predicted gene 15875',
'ENSMUSG00000093319' => 'predicted gene, 27854'
)
$gene_name_arr = array(
'ENSG00000088448' => 'ANKRD10',
'ENSG00000102606' => 'ARHGEF7',
'ENSG00000153495' => 'TEX29',
'ENSG00000225760' => 'LINC00431',
'ENSG00000225870' => 'LINC00368',
'ENSG00000227105' => 'PARP1P1',
'ENSG00000227352' => 'ARHGEF7-AS1',
'ENSG00000233644' => 'ARHGEF7-IT1',
'ENSG00000235875' => 'ARHGEF7-AS2',
'ENSG00000274614' => 'RP11-17E4.1',
'ENSG00000275989' => 'RP11-365P13.6',
'ENSG00000277767' => 'RP11-365P13.5',
'ENSMUSG00000031508' => 'Ankrd10',
'ENSMUSG00000031509' => '1700016D06Rik',
'ENSMUSG00000031510' => '1700128E19Rik',
'ENSMUSG00000031511' => 'Arhgef7',
'ENSMUSG00000031512' => 'Tex29',
'ENSMUSG00000086500' => 'Gm15875',
'ENSMUSG00000093319' => 'Gm27854'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0001',
'tax_id' => '9606',
'chromosome' => '13',
'seq_start' => '110900477',
'seq_end' => '111411201',
'region_length' => '510724',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '11623645',
'seq_end' => '11913000',
'region_length' => '289355',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0003',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '28088357',
'seq_end' => '28088558',
'region_length' => '201',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0004',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '46532777',
'seq_end' => '46536136',
'region_length' => '3359',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0005',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '9010074',
'seq_end' => '9010307',
'region_length' => '233',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0006',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '22602071',
'seq_end' => '22603256',
'region_length' => '1185',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 34 => 'Brain',
(int) 52 => 'Breast',
(int) 68 => 'Colon',
(int) 78 => 'Heart',
(int) 91 => 'Kidney',
(int) 103 => 'Liver',
(int) 119 => 'Lung',
(int) 135 => 'Muscle',
(int) 144 => 'Ovary',
(int) 161 => 'Placenta',
(int) 177 => '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) 61
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000267339' => array(
'start' => '110878540',
'end' => '110915069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-003'
),
'ENST00000310847' => array(
'start' => '110892692',
'end' => '110915006',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-004'
),
'ENST00000460846' => array(
'start' => '110905023',
'end' => '110914803',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-010'
),
'ENST00000463156' => array(
'start' => '110904031',
'end' => '110906115',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-001'
),
'ENST00000464579' => array(
'start' => '110903475',
'end' => '110906095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-009'
),
'ENST00000465753' => array(
'start' => '110892957',
'end' => '110915037',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ANKRD10-006'
),
'ENST00000475809' => array(
'start' => '110893028',
'end' => '110900739',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-007'
),
'ENST00000485844' => array(
'start' => '110879768',
'end' => '110893082',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-002'
),
'ENST00000489973' => array(
'start' => '110883709',
'end' => '110910746',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-005'
),
'ENST00000494859' => array(
'start' => '110893197',
'end' => '110914617',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-008'
),
'ENST00000603993' => array(
'start' => '110883195',
'end' => '110893132',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-011'
),
'ENST00000218789' => array(
'start' => '111153714',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-001'
),
'ENST00000317133' => array(
'start' => '111114619',
'end' => '111293436',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-008'
),
'ENST00000375723' => array(
'start' => '111205289',
'end' => '111295192',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-005'
),
'ENST00000375736' => array(
'start' => '111153738',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-007'
),
'ENST00000375739' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-201'
),
'ENST00000375741' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-202'
),
'ENST00000422836' => array(
'start' => '111115419',
'end' => '111116575',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-017'
),
'ENST00000426073' => array(
'start' => '111186854',
'end' => '111305737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-004'
),
'ENST00000426768' => array(
'start' => '111203060',
'end' => '111217885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-009'
),
'ENST00000449979' => array(
'start' => '111115428',
'end' => '111217880',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-003'
),
'ENST00000466143' => array(
'start' => '111153689',
'end' => '111283226',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-013'
),
'ENST00000467053' => array(
'start' => '111184938',
'end' => '111217865',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-016'
),
'ENST00000469877' => array(
'start' => '111153689',
'end' => '111283298',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ARHGEF7-012'
),
'ENST00000478679' => array(
'start' => '111241220',
'end' => '111292458',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-011'
),
'ENST00000483189' => array(
'start' => '111241145',
'end' => '111276031',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-010'
),
'ENST00000483540' => array(
'start' => '111114559',
'end' => '111153962',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-014'
),
'ENST00000491688' => array(
'start' => '111282828',
'end' => '111286236',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-006'
),
'ENST00000491775' => array(
'start' => '111153647',
'end' => '111217800',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-015'
),
'ENST00000544132' => array(
'start' => '111275651',
'end' => '111281109',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-018'
),
'ENST00000283547' => array(
'start' => '111320668',
'end' => '111344247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEX29-002'
),
'ENST00000497241' => array(
'start' => '111316184',
'end' => '111344249',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'TEX29-001'
),
'ENST00000440735' => array(
'start' => '110983307',
'end' => '110990564',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00431-001'
),
'ENST00000422994' => array(
'start' => '111095838',
'end' => '111103097',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00368-001'
),
'ENST00000413631' => array(
'start' => '110936759',
'end' => '110939784',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'PARP1P1-001'
),
'ENST00000435037' => array(
'start' => '111144305',
'end' => '111144733',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS1-001'
),
'ENST00000423329' => array(
'start' => '111122652',
'end' => '111144264',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'ARHGEF7-IT1-001'
),
'ENST00000425094' => array(
'start' => '111113812',
'end' => '111115678',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS2-001'
),
'ENST00000619088' => array(
'start' => '111182111',
'end' => '111182692',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-17E4.1-001'
),
'ENST00000615151' => array(
'start' => '110952722',
'end' => '110952811',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-365P13.6-001'
),
'ENST00000620246' => array(
'start' => '110916004',
'end' => '110917827',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-365P13.5-001'
),
'ENSMUST00000033905' => array(
'start' => '11611583',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-201'
),
'ENSMUST00000169782' => array(
'start' => '11614151',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-202'
),
'ENSMUST00000033906' => array(
'start' => '11654924',
'end' => '11678750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-001'
),
'ENSMUST00000190741' => array(
'start' => '11655479',
'end' => '11701063',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-002'
),
'ENSMUST00000190787' => array(
'start' => '11655478',
'end' => '11660735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700016D06Rik-003'
),
'ENSMUST00000191350' => array(
'start' => '11655480',
'end' => '11662604',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-004'
),
'ENSMUST00000134409' => array(
'start' => '11713264',
'end' => '11722620',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700128E19Rik-001'
),
'ENSMUST00000033908' => array(
'start' => '11728105',
'end' => '11823061',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-005'
),
'ENSMUST00000074856' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-001'
),
'ENSMUST00000098938' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-002'
),
'ENSMUST00000110904' => array(
'start' => '11782641',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-003'
),
'ENSMUST00000110909' => array(
'start' => '11728105',
'end' => '11827149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-004'
),
'ENSMUST00000151225' => array(
'start' => '11830238',
'end' => '11832300',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-006'
),
'ENSMUST00000154204' => array(
'start' => '11812362',
'end' => '11816345',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-007'
),
'ENSMUST00000033909' => array(
'start' => '11840474',
'end' => '11855761',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-001'
),
'ENSMUST00000132536' => array(
'start' => '11842061',
'end' => '11855757',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-002'
),
'ENSMUST00000144007' => array(
'start' => '11840611',
'end' => '11844158',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-003'
),
'ENSMUST00000166638' => array(
'start' => '11840919',
'end' => '11855705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-201'
),
'ENSMUST00000152264' => array(
'start' => '11838978',
'end' => '11840400',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm15875-001'
),
'ENSMUST00000175578' => array(
'start' => '11696615',
'end' => '11696858',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm27854-201'
)
)
$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_0007MP_0001' => array(
'genes_in_region' => array(
'ENSG00000088448' => array(
[maximum depth reached]
),
'ENSG00000102606' => array(
[maximum depth reached]
),
'ENSG00000153495' => array(
[maximum depth reached]
),
'ENSG00000225760' => array(
[maximum depth reached]
),
'ENSG00000225870' => array(
[maximum depth reached]
),
'ENSG00000227105' => array(
[maximum depth reached]
),
'ENSG00000227352' => array(
[maximum depth reached]
),
'ENSG00000233644' => array(
[maximum depth reached]
),
'ENSG00000274614' => array(
[maximum depth reached]
),
'ENSG00000275989' => array(
[maximum depth reached]
),
'ENSG00000277767' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Lung',
(int) 13 => 'Muscle',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Placenta',
(int) 18 => 'Brain',
(int) 19 => 'Brain',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Liver',
(int) 23 => 'Ovary',
(int) 24 => 'Testis',
(int) 25 => 'Adipose',
(int) 26 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Heart',
(int) 31 => 'Kidney',
(int) 32 => 'Liver',
(int) 33 => 'Lung',
(int) 34 => 'Muscle',
(int) 35 => 'Ovary',
(int) 36 => 'Placenta',
(int) 37 => 'Testis',
(int) 38 => 'Testis',
(int) 39 => 'Brain',
(int) 40 => 'Lung',
(int) 41 => 'Heart',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Breast',
(int) 53 => 'Kidney',
(int) 54 => 'Lung',
(int) 55 => 'Brain',
(int) 56 => 'Placenta',
(int) 57 => 'Adipose',
(int) 58 => 'Breast',
(int) 59 => 'Testis',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Brain',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Muscle',
(int) 69 => 'Testis',
(int) 70 => 'Adipose',
(int) 71 => 'Bladder',
(int) 72 => 'Brain',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Lung',
(int) 76 => 'Testis',
(int) 77 => 'Adipose',
(int) 78 => 'Adrenal',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Colon',
(int) 82 => 'Heart',
(int) 83 => 'Liver',
(int) 84 => 'Placenta',
(int) 85 => 'Testis',
(int) 86 => 'Adrenal',
(int) 87 => 'Bladder',
(int) 88 => 'Brain',
(int) 89 => 'Breast',
(int) 90 => 'Heart',
(int) 91 => 'Kidney',
(int) 92 => 'Liver',
(int) 93 => 'Lung',
(int) 94 => 'Muscle',
(int) 95 => 'Ovary',
(int) 96 => 'Testis',
(int) 97 => 'Testis',
(int) 98 => 'Adipose',
(int) 99 => 'Adrenal',
(int) 100 => 'Bladder',
(int) 101 => 'Brain',
(int) 102 => 'Breast',
(int) 103 => 'Colon',
(int) 104 => 'Heart',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Lung',
(int) 108 => 'Muscle',
(int) 109 => 'Ovary',
(int) 110 => 'Placenta',
(int) 111 => 'Testis'
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031508' => array(
[maximum depth reached]
),
'ENSMUSG00000031509' => array(
[maximum depth reached]
),
'ENSMUSG00000031510' => array(
[maximum depth reached]
),
'ENSMUSG00000031512' => array(
[maximum depth reached]
),
'ENSMUSG00000086500' => array(
[maximum depth reached]
),
'ENSMUSG00000093319' => 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 => 'Testis',
(int) 19 => 'Adipose',
(int) 20 => 'Kidney',
(int) 21 => 'Liver',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Testis',
(int) 25 => 'Placenta',
(int) 26 => 'Testis',
(int) 27 => 'Adipose',
(int) 28 => 'Bladder',
(int) 29 => 'Brain',
(int) 30 => 'Heart',
(int) 31 => 'Liver',
(int) 32 => 'Lung',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Adrenal',
(int) 38 => 'Bladder',
(int) 39 => 'Brain',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Heart',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Muscle',
(int) 47 => 'Ovary',
(int) 48 => 'Placenta',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Kidney',
(int) 69 => 'Testis',
(int) 70 => 'Kidney',
(int) 71 => 'Liver',
(int) 72 => 'Ovary',
(int) 73 => 'Placenta',
(int) 74 => 'Bladder',
(int) 75 => 'Breast',
(int) 76 => 'Bladder',
(int) 77 => 'Lung',
(int) 78 => 'Ovary',
(int) 79 => 'Testis',
(int) 80 => 'Brain',
(int) 81 => 'Ovary',
(int) 82 => 'Testis',
(int) 83 => 'Adipose',
(int) 84 => 'Brain',
(int) 85 => 'Breast',
(int) 86 => 'Liver',
(int) 87 => 'Lung',
(int) 88 => 'Ovary',
(int) 89 => 'Placenta',
(int) 90 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0004',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '46532777',
'seq_end' => '46536136',
'region_length' => '3359',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
)
$gene_el = array(
'ENSMUST00000175578' => array(
'Adipose' => array(
'average_FPKM' => '1.013',
'stddev_FPKM' => '0.24'
),
'Brain' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.756',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.386',
'stddev_FPKM' => '0.13'
),
'Lung' => array(
'average_FPKM' => '0.753',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '2.210',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.540',
'stddev_FPKM' => '0.67'
),
'Testis' => array(
'average_FPKM' => '1.087',
'stddev_FPKM' => '0.64'
)
)
)
$gene_key = 'ENSMUSG00000093319'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '1.013',
'stddev_FPKM' => '0.24'
),
'Brain' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.756',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.386',
'stddev_FPKM' => '0.13'
),
'Lung' => array(
'average_FPKM' => '0.753',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '2.210',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.540',
'stddev_FPKM' => '0.67'
),
'Testis' => array(
'average_FPKM' => '1.087',
'stddev_FPKM' => '0.64'
)
)
$tran_key = 'ENSMUST00000175578'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007MP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000088448' => 'ankyrin repeat domain 10',
'ENSG00000102606' => 'Rho guanine nucleotide exchange factor (GEF) 7',
'ENSG00000153495' => 'testis expressed 29',
'ENSG00000225760' => 'long intergenic non-protein coding RNA 431',
'ENSG00000225870' => 'long intergenic non-protein coding RNA 368',
'ENSG00000227105' => 'poly (ADP-ribose) polymerase family, member 1 pseudogene 1',
'ENSG00000227352' => 'ARHGEF7 antisense RNA 1',
'ENSG00000233644' => 'ARHGEF7 intronic transcript 1 (non-protein coding)',
'ENSG00000235875' => 'ARHGEF7 antisense RNA 2',
'ENSG00000274614' => null,
'ENSG00000275989' => null,
'ENSG00000277767' => null,
'ENSMUSG00000031508' => 'ankyrin repeat domain 10',
'ENSMUSG00000031509' => 'RIKEN cDNA 1700016D06 gene',
'ENSMUSG00000031510' => 'RIKEN cDNA 1700128E19 gene',
'ENSMUSG00000031511' => 'Rho guanine nucleotide exchange factor (GEF7)',
'ENSMUSG00000031512' => 'testis expressed 29',
'ENSMUSG00000086500' => 'predicted gene 15875',
'ENSMUSG00000093319' => 'predicted gene, 27854'
),
'gene_name_arr' => array(
'ENSG00000088448' => 'ANKRD10',
'ENSG00000102606' => 'ARHGEF7',
'ENSG00000153495' => 'TEX29',
'ENSG00000225760' => 'LINC00431',
'ENSG00000225870' => 'LINC00368',
'ENSG00000227105' => 'PARP1P1',
'ENSG00000227352' => 'ARHGEF7-AS1',
'ENSG00000233644' => 'ARHGEF7-IT1',
'ENSG00000235875' => 'ARHGEF7-AS2',
'ENSG00000274614' => 'RP11-17E4.1',
'ENSG00000275989' => 'RP11-365P13.6',
'ENSG00000277767' => 'RP11-365P13.5',
'ENSMUSG00000031508' => 'Ankrd10',
'ENSMUSG00000031509' => '1700016D06Rik',
'ENSMUSG00000031510' => '1700128E19Rik',
'ENSMUSG00000031511' => 'Arhgef7',
'ENSMUSG00000031512' => 'Tex29',
'ENSMUSG00000086500' => 'Gm15875',
'ENSMUSG00000093319' => 'Gm27854'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 34 => 'Brain',
(int) 52 => 'Breast',
(int) 68 => 'Colon',
(int) 78 => 'Heart',
(int) 91 => 'Kidney',
(int) 103 => 'Liver',
(int) 119 => 'Lung',
(int) 135 => 'Muscle',
(int) 144 => 'Ovary',
(int) 161 => 'Placenta',
(int) 177 => '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) 61,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000267339' => array(
'start' => '110878540',
'end' => '110915069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-003'
),
'ENST00000310847' => array(
'start' => '110892692',
'end' => '110915006',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-004'
),
'ENST00000460846' => array(
'start' => '110905023',
'end' => '110914803',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-010'
),
'ENST00000463156' => array(
'start' => '110904031',
'end' => '110906115',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-001'
),
'ENST00000464579' => array(
'start' => '110903475',
'end' => '110906095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-009'
),
'ENST00000465753' => array(
'start' => '110892957',
'end' => '110915037',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ANKRD10-006'
),
'ENST00000475809' => array(
'start' => '110893028',
'end' => '110900739',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-007'
),
'ENST00000485844' => array(
'start' => '110879768',
'end' => '110893082',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-002'
),
'ENST00000489973' => array(
'start' => '110883709',
'end' => '110910746',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-005'
),
'ENST00000494859' => array(
'start' => '110893197',
'end' => '110914617',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-008'
),
'ENST00000603993' => array(
'start' => '110883195',
'end' => '110893132',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-011'
),
'ENST00000218789' => array(
'start' => '111153714',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-001'
),
'ENST00000317133' => array(
'start' => '111114619',
'end' => '111293436',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-008'
),
'ENST00000375723' => array(
'start' => '111205289',
'end' => '111295192',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-005'
),
'ENST00000375736' => array(
'start' => '111153738',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-007'
),
'ENST00000375739' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-201'
),
'ENST00000375741' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-202'
),
'ENST00000422836' => array(
'start' => '111115419',
'end' => '111116575',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-017'
),
'ENST00000426073' => array(
'start' => '111186854',
'end' => '111305737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-004'
),
'ENST00000426768' => array(
'start' => '111203060',
'end' => '111217885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-009'
),
'ENST00000449979' => array(
'start' => '111115428',
'end' => '111217880',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-003'
),
'ENST00000466143' => array(
'start' => '111153689',
'end' => '111283226',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-013'
),
'ENST00000467053' => array(
'start' => '111184938',
'end' => '111217865',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-016'
),
'ENST00000469877' => array(
'start' => '111153689',
'end' => '111283298',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ARHGEF7-012'
),
'ENST00000478679' => array(
'start' => '111241220',
'end' => '111292458',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-011'
),
'ENST00000483189' => array(
'start' => '111241145',
'end' => '111276031',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-010'
),
'ENST00000483540' => array(
'start' => '111114559',
'end' => '111153962',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-014'
),
'ENST00000491688' => array(
'start' => '111282828',
'end' => '111286236',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-006'
),
'ENST00000491775' => array(
'start' => '111153647',
'end' => '111217800',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-015'
),
'ENST00000544132' => array(
'start' => '111275651',
'end' => '111281109',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-018'
),
'ENST00000283547' => array(
'start' => '111320668',
'end' => '111344247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEX29-002'
),
'ENST00000497241' => array(
'start' => '111316184',
'end' => '111344249',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'TEX29-001'
),
'ENST00000440735' => array(
'start' => '110983307',
'end' => '110990564',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00431-001'
),
'ENST00000422994' => array(
'start' => '111095838',
'end' => '111103097',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00368-001'
),
'ENST00000413631' => array(
'start' => '110936759',
'end' => '110939784',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'PARP1P1-001'
),
'ENST00000435037' => array(
'start' => '111144305',
'end' => '111144733',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS1-001'
),
'ENST00000423329' => array(
'start' => '111122652',
'end' => '111144264',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'ARHGEF7-IT1-001'
),
'ENST00000425094' => array(
'start' => '111113812',
'end' => '111115678',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS2-001'
),
'ENST00000619088' => array(
'start' => '111182111',
'end' => '111182692',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-17E4.1-001'
),
'ENST00000615151' => array(
'start' => '110952722',
'end' => '110952811',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-365P13.6-001'
),
'ENST00000620246' => array(
'start' => '110916004',
'end' => '110917827',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-365P13.5-001'
),
'ENSMUST00000033905' => array(
'start' => '11611583',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-201'
),
'ENSMUST00000169782' => array(
'start' => '11614151',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-202'
),
'ENSMUST00000033906' => array(
'start' => '11654924',
'end' => '11678750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-001'
),
'ENSMUST00000190741' => array(
'start' => '11655479',
'end' => '11701063',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-002'
),
'ENSMUST00000190787' => array(
'start' => '11655478',
'end' => '11660735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700016D06Rik-003'
),
'ENSMUST00000191350' => array(
'start' => '11655480',
'end' => '11662604',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-004'
),
'ENSMUST00000134409' => array(
'start' => '11713264',
'end' => '11722620',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700128E19Rik-001'
),
'ENSMUST00000033908' => array(
'start' => '11728105',
'end' => '11823061',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-005'
),
'ENSMUST00000074856' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-001'
),
'ENSMUST00000098938' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-002'
),
'ENSMUST00000110904' => array(
'start' => '11782641',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-003'
),
'ENSMUST00000110909' => array(
'start' => '11728105',
'end' => '11827149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-004'
),
'ENSMUST00000151225' => array(
'start' => '11830238',
'end' => '11832300',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-006'
),
'ENSMUST00000154204' => array(
'start' => '11812362',
'end' => '11816345',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-007'
),
'ENSMUST00000033909' => array(
'start' => '11840474',
'end' => '11855761',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-001'
),
'ENSMUST00000132536' => array(
'start' => '11842061',
'end' => '11855757',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-002'
),
'ENSMUST00000144007' => array(
'start' => '11840611',
'end' => '11844158',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-003'
),
'ENSMUST00000166638' => array(
'start' => '11840919',
'end' => '11855705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-201'
),
'ENSMUST00000152264' => array(
'start' => '11838978',
'end' => '11840400',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm15875-001'
),
'ENSMUST00000175578' => array(
'start' => '11696615',
'end' => '11696858',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm27854-201'
)
),
'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_0007MP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007MP_0001' => array(
'genes_in_region' => array(
'ENSG00000088448' => array(
[maximum depth reached]
),
'ENSG00000102606' => array(
[maximum depth reached]
),
'ENSG00000153495' => array(
[maximum depth reached]
),
'ENSG00000225760' => array(
[maximum depth reached]
),
'ENSG00000225870' => array(
[maximum depth reached]
),
'ENSG00000227105' => array(
[maximum depth reached]
),
'ENSG00000227352' => array(
[maximum depth reached]
),
'ENSG00000233644' => array(
[maximum depth reached]
),
'ENSG00000274614' => array(
[maximum depth reached]
),
'ENSG00000275989' => array(
[maximum depth reached]
),
'ENSG00000277767' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Lung',
(int) 13 => 'Muscle',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Placenta',
(int) 18 => 'Brain',
(int) 19 => 'Brain',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Liver',
(int) 23 => 'Ovary',
(int) 24 => 'Testis',
(int) 25 => 'Adipose',
(int) 26 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Heart',
(int) 31 => 'Kidney',
(int) 32 => 'Liver',
(int) 33 => 'Lung',
(int) 34 => 'Muscle',
(int) 35 => 'Ovary',
(int) 36 => 'Placenta',
(int) 37 => 'Testis',
(int) 38 => 'Testis',
(int) 39 => 'Brain',
(int) 40 => 'Lung',
(int) 41 => 'Heart',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Breast',
(int) 53 => 'Kidney',
(int) 54 => 'Lung',
(int) 55 => 'Brain',
(int) 56 => 'Placenta',
(int) 57 => 'Adipose',
(int) 58 => 'Breast',
(int) 59 => 'Testis',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Brain',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Muscle',
(int) 69 => 'Testis',
(int) 70 => 'Adipose',
(int) 71 => 'Bladder',
(int) 72 => 'Brain',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Lung',
(int) 76 => 'Testis',
(int) 77 => 'Adipose',
(int) 78 => 'Adrenal',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Colon',
(int) 82 => 'Heart',
(int) 83 => 'Liver',
(int) 84 => 'Placenta',
(int) 85 => 'Testis',
(int) 86 => 'Adrenal',
(int) 87 => 'Bladder',
(int) 88 => 'Brain',
(int) 89 => 'Breast',
(int) 90 => 'Heart',
(int) 91 => 'Kidney',
(int) 92 => 'Liver',
(int) 93 => 'Lung',
(int) 94 => 'Muscle',
(int) 95 => 'Ovary',
(int) 96 => 'Testis',
(int) 97 => 'Testis',
(int) 98 => 'Adipose',
(int) 99 => 'Adrenal',
(int) 100 => 'Bladder',
(int) 101 => 'Brain',
(int) 102 => 'Breast',
(int) 103 => 'Colon',
(int) 104 => 'Heart',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Lung',
(int) 108 => 'Muscle',
(int) 109 => 'Ovary',
(int) 110 => 'Placenta',
(int) 111 => 'Testis'
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031508' => array(
[maximum depth reached]
),
'ENSMUSG00000031509' => array(
[maximum depth reached]
),
'ENSMUSG00000031510' => array(
[maximum depth reached]
),
'ENSMUSG00000031512' => array(
[maximum depth reached]
),
'ENSMUSG00000086500' => array(
[maximum depth reached]
),
'ENSMUSG00000093319' => 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 => 'Testis',
(int) 19 => 'Adipose',
(int) 20 => 'Kidney',
(int) 21 => 'Liver',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Testis',
(int) 25 => 'Placenta',
(int) 26 => 'Testis',
(int) 27 => 'Adipose',
(int) 28 => 'Bladder',
(int) 29 => 'Brain',
(int) 30 => 'Heart',
(int) 31 => 'Liver',
(int) 32 => 'Lung',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Adrenal',
(int) 38 => 'Bladder',
(int) 39 => 'Brain',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Heart',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Muscle',
(int) 47 => 'Ovary',
(int) 48 => 'Placenta',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Kidney',
(int) 69 => 'Testis',
(int) 70 => 'Kidney',
(int) 71 => 'Liver',
(int) 72 => 'Ovary',
(int) 73 => 'Placenta',
(int) 74 => 'Bladder',
(int) 75 => 'Breast',
(int) 76 => 'Bladder',
(int) 77 => 'Lung',
(int) 78 => 'Ovary',
(int) 79 => 'Testis',
(int) 80 => 'Brain',
(int) 81 => 'Ovary',
(int) 82 => 'Testis',
(int) 83 => 'Adipose',
(int) 84 => 'Brain',
(int) 85 => 'Breast',
(int) 86 => 'Liver',
(int) 87 => 'Lung',
(int) 88 => 'Ovary',
(int) 89 => 'Placenta',
(int) 90 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000088448' => 'ankyrin repeat domain 10',
'ENSG00000102606' => 'Rho guanine nucleotide exchange factor (GEF) 7',
'ENSG00000153495' => 'testis expressed 29',
'ENSG00000225760' => 'long intergenic non-protein coding RNA 431',
'ENSG00000225870' => 'long intergenic non-protein coding RNA 368',
'ENSG00000227105' => 'poly (ADP-ribose) polymerase family, member 1 pseudogene 1',
'ENSG00000227352' => 'ARHGEF7 antisense RNA 1',
'ENSG00000233644' => 'ARHGEF7 intronic transcript 1 (non-protein coding)',
'ENSG00000235875' => 'ARHGEF7 antisense RNA 2',
'ENSG00000274614' => null,
'ENSG00000275989' => null,
'ENSG00000277767' => null,
'ENSMUSG00000031508' => 'ankyrin repeat domain 10',
'ENSMUSG00000031509' => 'RIKEN cDNA 1700016D06 gene',
'ENSMUSG00000031510' => 'RIKEN cDNA 1700128E19 gene',
'ENSMUSG00000031511' => 'Rho guanine nucleotide exchange factor (GEF7)',
'ENSMUSG00000031512' => 'testis expressed 29',
'ENSMUSG00000086500' => 'predicted gene 15875',
'ENSMUSG00000093319' => 'predicted gene, 27854'
)
$gene_name_arr = array(
'ENSG00000088448' => 'ANKRD10',
'ENSG00000102606' => 'ARHGEF7',
'ENSG00000153495' => 'TEX29',
'ENSG00000225760' => 'LINC00431',
'ENSG00000225870' => 'LINC00368',
'ENSG00000227105' => 'PARP1P1',
'ENSG00000227352' => 'ARHGEF7-AS1',
'ENSG00000233644' => 'ARHGEF7-IT1',
'ENSG00000235875' => 'ARHGEF7-AS2',
'ENSG00000274614' => 'RP11-17E4.1',
'ENSG00000275989' => 'RP11-365P13.6',
'ENSG00000277767' => 'RP11-365P13.5',
'ENSMUSG00000031508' => 'Ankrd10',
'ENSMUSG00000031509' => '1700016D06Rik',
'ENSMUSG00000031510' => '1700128E19Rik',
'ENSMUSG00000031511' => 'Arhgef7',
'ENSMUSG00000031512' => 'Tex29',
'ENSMUSG00000086500' => 'Gm15875',
'ENSMUSG00000093319' => 'Gm27854'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0001',
'tax_id' => '9606',
'chromosome' => '13',
'seq_start' => '110900477',
'seq_end' => '111411201',
'region_length' => '510724',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '11623645',
'seq_end' => '11913000',
'region_length' => '289355',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0003',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '28088357',
'seq_end' => '28088558',
'region_length' => '201',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0004',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '46532777',
'seq_end' => '46536136',
'region_length' => '3359',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0005',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '9010074',
'seq_end' => '9010307',
'region_length' => '233',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0006',
'tax_id' => '7955',
'chromosome' => '9',
'seq_start' => '22602071',
'seq_end' => '22603256',
'region_length' => '1185',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 15 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 34 => 'Brain',
(int) 52 => 'Breast',
(int) 68 => 'Colon',
(int) 78 => 'Heart',
(int) 91 => 'Kidney',
(int) 103 => 'Liver',
(int) 119 => 'Lung',
(int) 135 => 'Muscle',
(int) 144 => 'Ovary',
(int) 161 => 'Placenta',
(int) 177 => '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) 61
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000267339' => array(
'start' => '110878540',
'end' => '110915069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-003'
),
'ENST00000310847' => array(
'start' => '110892692',
'end' => '110915006',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-004'
),
'ENST00000460846' => array(
'start' => '110905023',
'end' => '110914803',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-010'
),
'ENST00000463156' => array(
'start' => '110904031',
'end' => '110906115',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-001'
),
'ENST00000464579' => array(
'start' => '110903475',
'end' => '110906095',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-009'
),
'ENST00000465753' => array(
'start' => '110892957',
'end' => '110915037',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ANKRD10-006'
),
'ENST00000475809' => array(
'start' => '110893028',
'end' => '110900739',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-007'
),
'ENST00000485844' => array(
'start' => '110879768',
'end' => '110893082',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-002'
),
'ENST00000489973' => array(
'start' => '110883709',
'end' => '110910746',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-005'
),
'ENST00000494859' => array(
'start' => '110893197',
'end' => '110914617',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ANKRD10-008'
),
'ENST00000603993' => array(
'start' => '110883195',
'end' => '110893132',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ANKRD10-011'
),
'ENST00000218789' => array(
'start' => '111153714',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-001'
),
'ENST00000317133' => array(
'start' => '111114619',
'end' => '111293436',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-008'
),
'ENST00000375723' => array(
'start' => '111205289',
'end' => '111295192',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-005'
),
'ENST00000375736' => array(
'start' => '111153738',
'end' => '111305731',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-007'
),
'ENST00000375739' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-201'
),
'ENST00000375741' => array(
'start' => '111115277',
'end' => '111295195',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-202'
),
'ENST00000422836' => array(
'start' => '111115419',
'end' => '111116575',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-017'
),
'ENST00000426073' => array(
'start' => '111186854',
'end' => '111305737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-004'
),
'ENST00000426768' => array(
'start' => '111203060',
'end' => '111217885',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-009'
),
'ENST00000449979' => array(
'start' => '111115428',
'end' => '111217880',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-003'
),
'ENST00000466143' => array(
'start' => '111153689',
'end' => '111283226',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-013'
),
'ENST00000467053' => array(
'start' => '111184938',
'end' => '111217865',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-016'
),
'ENST00000469877' => array(
'start' => '111153689',
'end' => '111283298',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'ARHGEF7-012'
),
'ENST00000478679' => array(
'start' => '111241220',
'end' => '111292458',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-011'
),
'ENST00000483189' => array(
'start' => '111241145',
'end' => '111276031',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-010'
),
'ENST00000483540' => array(
'start' => '111114559',
'end' => '111153962',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-014'
),
'ENST00000491688' => array(
'start' => '111282828',
'end' => '111286236',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ARHGEF7-006'
),
'ENST00000491775' => array(
'start' => '111153647',
'end' => '111217800',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-015'
),
'ENST00000544132' => array(
'start' => '111275651',
'end' => '111281109',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ARHGEF7-018'
),
'ENST00000283547' => array(
'start' => '111320668',
'end' => '111344247',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEX29-002'
),
'ENST00000497241' => array(
'start' => '111316184',
'end' => '111344249',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'TEX29-001'
),
'ENST00000440735' => array(
'start' => '110983307',
'end' => '110990564',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00431-001'
),
'ENST00000422994' => array(
'start' => '111095838',
'end' => '111103097',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC00368-001'
),
'ENST00000413631' => array(
'start' => '110936759',
'end' => '110939784',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'PARP1P1-001'
),
'ENST00000435037' => array(
'start' => '111144305',
'end' => '111144733',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS1-001'
),
'ENST00000423329' => array(
'start' => '111122652',
'end' => '111144264',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'ARHGEF7-IT1-001'
),
'ENST00000425094' => array(
'start' => '111113812',
'end' => '111115678',
'transcript_biotype' => 'antisense',
'transcript_name' => 'ARHGEF7-AS2-001'
),
'ENST00000619088' => array(
'start' => '111182111',
'end' => '111182692',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-17E4.1-001'
),
'ENST00000615151' => array(
'start' => '110952722',
'end' => '110952811',
'transcript_biotype' => 'unprocessed_pseudogene',
'transcript_name' => 'RP11-365P13.6-001'
),
'ENST00000620246' => array(
'start' => '110916004',
'end' => '110917827',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-365P13.5-001'
),
'ENSMUST00000033905' => array(
'start' => '11611583',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-201'
),
'ENSMUST00000169782' => array(
'start' => '11614151',
'end' => '11635754',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Ankrd10-202'
),
'ENSMUST00000033906' => array(
'start' => '11654924',
'end' => '11678750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-001'
),
'ENSMUST00000190741' => array(
'start' => '11655479',
'end' => '11701063',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-002'
),
'ENSMUST00000190787' => array(
'start' => '11655478',
'end' => '11660735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => '1700016D06Rik-003'
),
'ENSMUST00000191350' => array(
'start' => '11655480',
'end' => '11662604',
'transcript_biotype' => 'protein_coding',
'transcript_name' => '1700016D06Rik-004'
),
'ENSMUST00000134409' => array(
'start' => '11713264',
'end' => '11722620',
'transcript_biotype' => 'lincRNA',
'transcript_name' => '1700128E19Rik-001'
),
'ENSMUST00000033908' => array(
'start' => '11728105',
'end' => '11823061',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-005'
),
'ENSMUST00000074856' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-001'
),
'ENSMUST00000098938' => array(
'start' => '11758354',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-002'
),
'ENSMUST00000110904' => array(
'start' => '11782641',
'end' => '11835219',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-003'
),
'ENSMUST00000110909' => array(
'start' => '11728105',
'end' => '11827149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Arhgef7-004'
),
'ENSMUST00000151225' => array(
'start' => '11830238',
'end' => '11832300',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-006'
),
'ENSMUST00000154204' => array(
'start' => '11812362',
'end' => '11816345',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Arhgef7-007'
),
'ENSMUST00000033909' => array(
'start' => '11840474',
'end' => '11855761',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-001'
),
'ENSMUST00000132536' => array(
'start' => '11842061',
'end' => '11855757',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-002'
),
'ENSMUST00000144007' => array(
'start' => '11840611',
'end' => '11844158',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Tex29-003'
),
'ENSMUST00000166638' => array(
'start' => '11840919',
'end' => '11855705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Tex29-201'
),
'ENSMUST00000152264' => array(
'start' => '11838978',
'end' => '11840400',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm15875-001'
),
'ENSMUST00000175578' => array(
'start' => '11696615',
'end' => '11696858',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'Gm27854-201'
)
)
$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_0007MP_0001' => array(
'genes_in_region' => array(
'ENSG00000088448' => array(
[maximum depth reached]
),
'ENSG00000102606' => array(
[maximum depth reached]
),
'ENSG00000153495' => array(
[maximum depth reached]
),
'ENSG00000225760' => array(
[maximum depth reached]
),
'ENSG00000225870' => array(
[maximum depth reached]
),
'ENSG00000227105' => array(
[maximum depth reached]
),
'ENSG00000227352' => array(
[maximum depth reached]
),
'ENSG00000233644' => array(
[maximum depth reached]
),
'ENSG00000274614' => array(
[maximum depth reached]
),
'ENSG00000275989' => array(
[maximum depth reached]
),
'ENSG00000277767' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Breast',
(int) 3 => 'Colon',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Lung',
(int) 8 => 'Muscle',
(int) 9 => 'Ovary',
(int) 10 => 'Placenta',
(int) 11 => 'Testis',
(int) 12 => 'Lung',
(int) 13 => 'Muscle',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Testis',
(int) 17 => 'Placenta',
(int) 18 => 'Brain',
(int) 19 => 'Brain',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Liver',
(int) 23 => 'Ovary',
(int) 24 => 'Testis',
(int) 25 => 'Adipose',
(int) 26 => 'Adrenal',
(int) 27 => 'Bladder',
(int) 28 => 'Breast',
(int) 29 => 'Colon',
(int) 30 => 'Heart',
(int) 31 => 'Kidney',
(int) 32 => 'Liver',
(int) 33 => 'Lung',
(int) 34 => 'Muscle',
(int) 35 => 'Ovary',
(int) 36 => 'Placenta',
(int) 37 => 'Testis',
(int) 38 => 'Testis',
(int) 39 => 'Brain',
(int) 40 => 'Lung',
(int) 41 => 'Heart',
(int) 42 => 'Adipose',
(int) 43 => 'Adrenal',
(int) 44 => 'Brain',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Ovary',
(int) 50 => 'Placenta',
(int) 51 => 'Testis',
(int) 52 => 'Breast',
(int) 53 => 'Kidney',
(int) 54 => 'Lung',
(int) 55 => 'Brain',
(int) 56 => 'Placenta',
(int) 57 => 'Adipose',
(int) 58 => 'Breast',
(int) 59 => 'Testis',
(int) 60 => 'Adipose',
(int) 61 => 'Adrenal',
(int) 62 => 'Brain',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Liver',
(int) 67 => 'Lung',
(int) 68 => 'Muscle',
(int) 69 => 'Testis',
(int) 70 => 'Adipose',
(int) 71 => 'Bladder',
(int) 72 => 'Brain',
(int) 73 => 'Breast',
(int) 74 => 'Colon',
(int) 75 => 'Lung',
(int) 76 => 'Testis',
(int) 77 => 'Adipose',
(int) 78 => 'Adrenal',
(int) 79 => 'Brain',
(int) 80 => 'Breast',
(int) 81 => 'Colon',
(int) 82 => 'Heart',
(int) 83 => 'Liver',
(int) 84 => 'Placenta',
(int) 85 => 'Testis',
(int) 86 => 'Adrenal',
(int) 87 => 'Bladder',
(int) 88 => 'Brain',
(int) 89 => 'Breast',
(int) 90 => 'Heart',
(int) 91 => 'Kidney',
(int) 92 => 'Liver',
(int) 93 => 'Lung',
(int) 94 => 'Muscle',
(int) 95 => 'Ovary',
(int) 96 => 'Testis',
(int) 97 => 'Testis',
(int) 98 => 'Adipose',
(int) 99 => 'Adrenal',
(int) 100 => 'Bladder',
(int) 101 => 'Brain',
(int) 102 => 'Breast',
(int) 103 => 'Colon',
(int) 104 => 'Heart',
(int) 105 => 'Kidney',
(int) 106 => 'Liver',
(int) 107 => 'Lung',
(int) 108 => 'Muscle',
(int) 109 => 'Ovary',
(int) 110 => 'Placenta',
(int) 111 => 'Testis'
)
),
'CIL_0007MP_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000031508' => array(
[maximum depth reached]
),
'ENSMUSG00000031509' => array(
[maximum depth reached]
),
'ENSMUSG00000031510' => array(
[maximum depth reached]
),
'ENSMUSG00000031512' => array(
[maximum depth reached]
),
'ENSMUSG00000086500' => array(
[maximum depth reached]
),
'ENSMUSG00000093319' => 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 => 'Testis',
(int) 19 => 'Adipose',
(int) 20 => 'Kidney',
(int) 21 => 'Liver',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Testis',
(int) 25 => 'Placenta',
(int) 26 => 'Testis',
(int) 27 => 'Adipose',
(int) 28 => 'Bladder',
(int) 29 => 'Brain',
(int) 30 => 'Heart',
(int) 31 => 'Liver',
(int) 32 => 'Lung',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adipose',
(int) 37 => 'Adrenal',
(int) 38 => 'Bladder',
(int) 39 => 'Brain',
(int) 40 => 'Breast',
(int) 41 => 'Colon',
(int) 42 => 'Heart',
(int) 43 => 'Kidney',
(int) 44 => 'Liver',
(int) 45 => 'Lung',
(int) 46 => 'Muscle',
(int) 47 => 'Ovary',
(int) 48 => 'Placenta',
(int) 49 => 'Testis',
(int) 50 => 'Brain',
(int) 51 => 'Testis',
(int) 52 => 'Adipose',
(int) 53 => 'Bladder',
(int) 54 => 'Brain',
(int) 55 => 'Breast',
(int) 56 => 'Heart',
(int) 57 => 'Liver',
(int) 58 => 'Lung',
(int) 59 => 'Muscle',
(int) 60 => 'Ovary',
(int) 61 => 'Placenta',
(int) 62 => 'Testis',
(int) 63 => 'Brain',
(int) 64 => 'Ovary',
(int) 65 => 'Testis',
(int) 66 => 'Breast',
(int) 67 => 'Heart',
(int) 68 => 'Kidney',
(int) 69 => 'Testis',
(int) 70 => 'Kidney',
(int) 71 => 'Liver',
(int) 72 => 'Ovary',
(int) 73 => 'Placenta',
(int) 74 => 'Bladder',
(int) 75 => 'Breast',
(int) 76 => 'Bladder',
(int) 77 => 'Lung',
(int) 78 => 'Ovary',
(int) 79 => 'Testis',
(int) 80 => 'Brain',
(int) 81 => 'Ovary',
(int) 82 => 'Testis',
(int) 83 => 'Adipose',
(int) 84 => 'Brain',
(int) 85 => 'Breast',
(int) 86 => 'Liver',
(int) 87 => 'Lung',
(int) 88 => 'Ovary',
(int) 89 => 'Placenta',
(int) 90 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007MP_0004',
'tax_id' => '7955',
'chromosome' => '1',
'seq_start' => '46532777',
'seq_end' => '46536136',
'region_length' => '3359',
'region_type' => 'UCNEbase',
'el_id' => 'SOX1'
)
)
$gene_el = array(
'ENSMUST00000175578' => array(
'Adipose' => array(
'average_FPKM' => '1.013',
'stddev_FPKM' => '0.24'
),
'Brain' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.756',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.386',
'stddev_FPKM' => '0.13'
),
'Lung' => array(
'average_FPKM' => '0.753',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '2.210',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.540',
'stddev_FPKM' => '0.67'
),
'Testis' => array(
'average_FPKM' => '1.087',
'stddev_FPKM' => '0.64'
)
)
)
$gene_key = 'ENSMUSG00000093319'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '1.013',
'stddev_FPKM' => '0.24'
),
'Brain' => array(
'average_FPKM' => '0.039',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.756',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.386',
'stddev_FPKM' => '0.13'
),
'Lung' => array(
'average_FPKM' => '0.753',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '2.210',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.540',
'stddev_FPKM' => '0.67'
),
'Testis' => array(
'average_FPKM' => '1.087',
'stddev_FPKM' => '0.64'
)
)
$tran_key = 'ENSMUST00000175578'
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
| Source ID |
Type |
Tax ID |
Position |
| SOX1 |
UCNEbase |
7955 |
1:46532777-46536136  |
| Gene | Transcript | Position | Biotype |
|---|
(ANKRD10)