| Source ID |
Type |
Tax ID |
Position |
| ENSMUSG00000066952-ENSMUSG00000001098 |
CGP |
10090 |
5:114314941-114380515  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0001GP_0003 [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_0001GP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSDARG00000017115' => 'potassium channel tetramerisation domain containing 10',
'ENSDARG00000061968' => 'myosin IHa',
'ENSG00000110906' => 'potassium channel tetramerization domain containing 10',
'ENSG00000151148' => 'ubiquitin protein ligase E3B',
'ENSG00000174527' => 'myosin IH',
'ENSG00000255655' => null,
'ENSG00000256560' => 'long intergenic non-protein coding RNA 1486',
'ENSMUSG00000001098' => 'potassium channel tetramerisation domain containing 10',
'ENSMUSG00000066952' => 'myosin 1H',
'ENSMUSG00000085590' => 'predicted gene 13789'
),
'gene_name_arr' => array(
'ENSDARG00000017115' => 'kctd10',
'ENSDARG00000061968' => 'myo1ha',
'ENSG00000110906' => 'KCTD10',
'ENSG00000151148' => 'UBE3B',
'ENSG00000174527' => 'MYO1H',
'ENSG00000255655' => 'RP11-256L11.3',
'ENSG00000256560' => 'LINC01486',
'ENSMUSG00000001098' => 'Kctd10',
'ENSMUSG00000066952' => 'Myo1h',
'ENSMUSG00000085590' => 'Gm13789'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 11 => 'Bladder',
(int) 16 => 'Brain',
(int) 24 => 'Breast',
(int) 32 => 'Colon',
(int) 41 => 'Heart',
(int) 51 => 'Kidney',
(int) 62 => 'Liver',
(int) 71 => 'Lung',
(int) 79 => 'Muscle',
(int) 86 => 'Ovary',
(int) 95 => 'Placenta',
(int) 104 => '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) 54,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENSDART00000011596' => array(
'start' => '21222682',
'end' => '21226831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-201'
),
'ENSDART00000136259' => array(
'start' => '21219811',
'end' => '21228258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-001'
),
'ENSDART00000141268' => array(
'start' => '21226006',
'end' => '21228277',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'kctd10-002'
),
'ENSDART00000089014' => array(
'start' => '21197250',
'end' => '21217843',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-201'
),
'ENSDART00000146215' => array(
'start' => '21197272',
'end' => '21217777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-001'
),
'ENST00000228495' => array(
'start' => '109448656',
'end' => '109477544',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-001'
),
'ENST00000440541' => array(
'start' => '109449971',
'end' => '109477359',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-002'
),
'ENST00000535546' => array(
'start' => '109451634',
'end' => '109458982',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-012'
),
'ENST00000535747' => array(
'start' => '109460326',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-010'
),
'ENST00000537165' => array(
'start' => '109451287',
'end' => '109477300',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-003'
),
'ENST00000538161' => array(
'start' => '109451404',
'end' => '109464895',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'KCTD10-005'
),
'ENST00000538377' => array(
'start' => '109469062',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-009'
),
'ENST00000540089' => array(
'start' => '109449961',
'end' => '109458985',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-007'
),
'ENST00000540355' => array(
'start' => '109451682',
'end' => '109458871',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-013'
),
'ENST00000540402' => array(
'start' => '109451641',
'end' => '109457975',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-014'
),
'ENST00000540411' => array(
'start' => '109451595',
'end' => '109469724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-004'
),
'ENST00000541077' => array(
'start' => '109456222',
'end' => '109477289',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-008'
),
'ENST00000542262' => array(
'start' => '109456243',
'end' => '109477305',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-016'
),
'ENST00000542858' => array(
'start' => '109456285',
'end' => '109477300',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-015'
),
'ENST00000542954' => array(
'start' => '109451630',
'end' => '109460395',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-011'
),
'ENST00000545759' => array(
'start' => '109449971',
'end' => '109459629',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-006'
),
'ENST00000340074' => array(
'start' => '109477652',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-005'
),
'ENST00000342494' => array(
'start' => '109477642',
'end' => '109536702',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-001'
),
'ENST00000434735' => array(
'start' => '109477402',
'end' => '109536705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-002'
),
'ENST00000449510' => array(
'start' => '109477653',
'end' => '109534654',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'UBE3B-008'
),
'ENST00000535900' => array(
'start' => '109501425',
'end' => '109511315',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'UBE3B-014'
),
'ENST00000536398' => array(
'start' => '109477635',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-004'
),
'ENST00000537063' => array(
'start' => '109477655',
'end' => '109492737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-007'
),
'ENST00000538070' => array(
'start' => '109519556',
'end' => '109535071',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-010'
),
'ENST00000539584' => array(
'start' => '109508450',
'end' => '109524095',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-012'
),
'ENST00000539599' => array(
'start' => '109477638',
'end' => '109526404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-006'
),
'ENST00000539843' => array(
'start' => '109477628',
'end' => '109484021',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-011'
),
'ENST00000540230' => array(
'start' => '109477653',
'end' => '109491149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-003'
),
'ENST00000605142' => array(
'start' => '109529930',
'end' => '109534538',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-009'
),
'ENST00000310903' => array(
'start' => '109347903',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-001'
),
'ENST00000431443' => array(
'start' => '109388719',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-201'
),
'ENST00000457826' => array(
'start' => '109440567',
'end' => '109443670',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-005'
),
'ENST00000542268' => array(
'start' => '109439537',
'end' => '109447455',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-003'
),
'ENST00000542883' => array(
'start' => '109401405',
'end' => '109407881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYO1H-004'
),
'ENST00000543960' => array(
'start' => '109443562',
'end' => '109455523',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYO1H-006'
),
'ENST00000539987' => array(
'start' => '109445410',
'end' => '109447497',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-256L11.3-001'
),
'ENST00000538041' => array(
'start' => '109354083',
'end' => '109359488',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01486-001'
),
'ENSMUST00000001125' => array(
'start' => '114365622',
'end' => '114380483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-002'
),
'ENSMUST00000102581' => array(
'start' => '114363567',
'end' => '114380515',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-001'
),
'ENSMUST00000123538' => array(
'start' => '114366984',
'end' => '114369252',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-005'
),
'ENSMUST00000132646' => array(
'start' => '114366883',
'end' => '114368669',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-007'
),
'ENSMUST00000134173' => array(
'start' => '114365706',
'end' => '114372142',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Kctd10-004'
),
'ENSMUST00000134532' => array(
'start' => '114364462',
'end' => '114380489',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Kctd10-003'
),
'ENSMUST00000135170' => array(
'start' => '114366903',
'end' => '114370207',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-006'
),
'ENSMUST00000124316' => array(
'start' => '114314941',
'end' => '114362208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-001'
),
'ENSMUST00000128379' => array(
'start' => '114357406',
'end' => '114359735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-003'
),
'ENSMUST00000152694' => array(
'start' => '114356815',
'end' => '114364576',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-002'
),
'ENSMUST00000169347' => array(
'start' => '114314941',
'end' => '114364576',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-201'
),
'ENSMUST00000125230' => array(
'start' => '114363415',
'end' => '114365357',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm13789-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
'ENSDARG00000017115' => array(
[maximum depth reached]
),
'ENSDARG00000061968' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Brain',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Muscle',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Brain',
(int) 11 => 'Kidney',
(int) 12 => 'Liver'
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
'ENSG00000110906' => array(
[maximum depth reached]
),
'ENSG00000174527' => array(
[maximum depth reached]
),
'ENSG00000255655' => array(
[maximum depth reached]
),
'ENSG00000256560' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adipose',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Adipose',
(int) 22 => 'Bladder',
(int) 23 => 'Brain',
(int) 24 => 'Breast',
(int) 25 => 'Colon',
(int) 26 => 'Heart',
(int) 27 => 'Kidney',
(int) 28 => 'Liver',
(int) 29 => 'Lung',
(int) 30 => 'Muscle',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Placenta',
(int) 43 => 'Testis',
(int) 44 => 'Bladder',
(int) 45 => 'Heart',
(int) 46 => 'Lung',
(int) 47 => 'Ovary',
(int) 48 => 'Colon',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Ovary',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Brain',
(int) 61 => 'Breast',
(int) 62 => 'Placenta',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Lung',
(int) 67 => 'Adipose',
(int) 68 => 'Adrenal',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Heart',
(int) 72 => 'Lung',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adrenal',
(int) 77 => 'Breast',
(int) 78 => 'Colon',
(int) 79 => 'Kidney',
(int) 80 => 'Lung',
(int) 81 => 'Muscle',
(int) 82 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSDARG00000017115' => 'potassium channel tetramerisation domain containing 10',
'ENSDARG00000061968' => 'myosin IHa',
'ENSG00000110906' => 'potassium channel tetramerization domain containing 10',
'ENSG00000151148' => 'ubiquitin protein ligase E3B',
'ENSG00000174527' => 'myosin IH',
'ENSG00000255655' => null,
'ENSG00000256560' => 'long intergenic non-protein coding RNA 1486',
'ENSMUSG00000001098' => 'potassium channel tetramerisation domain containing 10',
'ENSMUSG00000066952' => 'myosin 1H',
'ENSMUSG00000085590' => 'predicted gene 13789'
)
$gene_name_arr = array(
'ENSDARG00000017115' => 'kctd10',
'ENSDARG00000061968' => 'myo1ha',
'ENSG00000110906' => 'KCTD10',
'ENSG00000151148' => 'UBE3B',
'ENSG00000174527' => 'MYO1H',
'ENSG00000255655' => 'RP11-256L11.3',
'ENSG00000256560' => 'LINC01486',
'ENSMUSG00000001098' => 'Kctd10',
'ENSMUSG00000066952' => 'Myo1h',
'ENSMUSG00000085590' => 'Gm13789'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0001',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '21197250',
'seq_end' => '21228277',
'region_length' => '31027',
'region_type' => 'CGP',
'el_id' => 'ENSDARG00000061968-ENSDARG00000017115'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0002',
'tax_id' => '9606',
'chromosome' => '12',
'seq_start' => '109347903',
'seq_end' => '109477544',
'region_length' => '129641',
'region_type' => 'CGP',
'el_id' => 'ENSG00000174527-ENSG00000110906'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0003',
'tax_id' => '10090',
'chromosome' => '5',
'seq_start' => '114314941',
'seq_end' => '114380515',
'region_length' => '65574',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000066952-ENSMUSG00000001098'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 11 => 'Bladder',
(int) 16 => 'Brain',
(int) 24 => 'Breast',
(int) 32 => 'Colon',
(int) 41 => 'Heart',
(int) 51 => 'Kidney',
(int) 62 => 'Liver',
(int) 71 => 'Lung',
(int) 79 => 'Muscle',
(int) 86 => 'Ovary',
(int) 95 => 'Placenta',
(int) 104 => '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) 54
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENSDART00000011596' => array(
'start' => '21222682',
'end' => '21226831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-201'
),
'ENSDART00000136259' => array(
'start' => '21219811',
'end' => '21228258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-001'
),
'ENSDART00000141268' => array(
'start' => '21226006',
'end' => '21228277',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'kctd10-002'
),
'ENSDART00000089014' => array(
'start' => '21197250',
'end' => '21217843',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-201'
),
'ENSDART00000146215' => array(
'start' => '21197272',
'end' => '21217777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-001'
),
'ENST00000228495' => array(
'start' => '109448656',
'end' => '109477544',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-001'
),
'ENST00000440541' => array(
'start' => '109449971',
'end' => '109477359',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-002'
),
'ENST00000535546' => array(
'start' => '109451634',
'end' => '109458982',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-012'
),
'ENST00000535747' => array(
'start' => '109460326',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-010'
),
'ENST00000537165' => array(
'start' => '109451287',
'end' => '109477300',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-003'
),
'ENST00000538161' => array(
'start' => '109451404',
'end' => '109464895',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'KCTD10-005'
),
'ENST00000538377' => array(
'start' => '109469062',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-009'
),
'ENST00000540089' => array(
'start' => '109449961',
'end' => '109458985',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-007'
),
'ENST00000540355' => array(
'start' => '109451682',
'end' => '109458871',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-013'
),
'ENST00000540402' => array(
'start' => '109451641',
'end' => '109457975',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-014'
),
'ENST00000540411' => array(
'start' => '109451595',
'end' => '109469724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-004'
),
'ENST00000541077' => array(
'start' => '109456222',
'end' => '109477289',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-008'
),
'ENST00000542262' => array(
'start' => '109456243',
'end' => '109477305',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-016'
),
'ENST00000542858' => array(
'start' => '109456285',
'end' => '109477300',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-015'
),
'ENST00000542954' => array(
'start' => '109451630',
'end' => '109460395',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-011'
),
'ENST00000545759' => array(
'start' => '109449971',
'end' => '109459629',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-006'
),
'ENST00000340074' => array(
'start' => '109477652',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-005'
),
'ENST00000342494' => array(
'start' => '109477642',
'end' => '109536702',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-001'
),
'ENST00000434735' => array(
'start' => '109477402',
'end' => '109536705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-002'
),
'ENST00000449510' => array(
'start' => '109477653',
'end' => '109534654',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'UBE3B-008'
),
'ENST00000535900' => array(
'start' => '109501425',
'end' => '109511315',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'UBE3B-014'
),
'ENST00000536398' => array(
'start' => '109477635',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-004'
),
'ENST00000537063' => array(
'start' => '109477655',
'end' => '109492737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-007'
),
'ENST00000538070' => array(
'start' => '109519556',
'end' => '109535071',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-010'
),
'ENST00000539584' => array(
'start' => '109508450',
'end' => '109524095',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-012'
),
'ENST00000539599' => array(
'start' => '109477638',
'end' => '109526404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-006'
),
'ENST00000539843' => array(
'start' => '109477628',
'end' => '109484021',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-011'
),
'ENST00000540230' => array(
'start' => '109477653',
'end' => '109491149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-003'
),
'ENST00000605142' => array(
'start' => '109529930',
'end' => '109534538',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-009'
),
'ENST00000310903' => array(
'start' => '109347903',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-001'
),
'ENST00000431443' => array(
'start' => '109388719',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-201'
),
'ENST00000457826' => array(
'start' => '109440567',
'end' => '109443670',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-005'
),
'ENST00000542268' => array(
'start' => '109439537',
'end' => '109447455',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-003'
),
'ENST00000542883' => array(
'start' => '109401405',
'end' => '109407881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYO1H-004'
),
'ENST00000543960' => array(
'start' => '109443562',
'end' => '109455523',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYO1H-006'
),
'ENST00000539987' => array(
'start' => '109445410',
'end' => '109447497',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-256L11.3-001'
),
'ENST00000538041' => array(
'start' => '109354083',
'end' => '109359488',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01486-001'
),
'ENSMUST00000001125' => array(
'start' => '114365622',
'end' => '114380483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-002'
),
'ENSMUST00000102581' => array(
'start' => '114363567',
'end' => '114380515',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-001'
),
'ENSMUST00000123538' => array(
'start' => '114366984',
'end' => '114369252',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-005'
),
'ENSMUST00000132646' => array(
'start' => '114366883',
'end' => '114368669',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-007'
),
'ENSMUST00000134173' => array(
'start' => '114365706',
'end' => '114372142',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Kctd10-004'
),
'ENSMUST00000134532' => array(
'start' => '114364462',
'end' => '114380489',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Kctd10-003'
),
'ENSMUST00000135170' => array(
'start' => '114366903',
'end' => '114370207',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-006'
),
'ENSMUST00000124316' => array(
'start' => '114314941',
'end' => '114362208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-001'
),
'ENSMUST00000128379' => array(
'start' => '114357406',
'end' => '114359735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-003'
),
'ENSMUST00000152694' => array(
'start' => '114356815',
'end' => '114364576',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-002'
),
'ENSMUST00000169347' => array(
'start' => '114314941',
'end' => '114364576',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-201'
),
'ENSMUST00000125230' => array(
'start' => '114363415',
'end' => '114365357',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm13789-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
'ENSDARG00000017115' => array(
[maximum depth reached]
),
'ENSDARG00000061968' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Brain',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Muscle',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Brain',
(int) 11 => 'Kidney',
(int) 12 => 'Liver'
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
'ENSG00000110906' => array(
[maximum depth reached]
),
'ENSG00000174527' => array(
[maximum depth reached]
),
'ENSG00000255655' => array(
[maximum depth reached]
),
'ENSG00000256560' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adipose',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Adipose',
(int) 22 => 'Bladder',
(int) 23 => 'Brain',
(int) 24 => 'Breast',
(int) 25 => 'Colon',
(int) 26 => 'Heart',
(int) 27 => 'Kidney',
(int) 28 => 'Liver',
(int) 29 => 'Lung',
(int) 30 => 'Muscle',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Placenta',
(int) 43 => 'Testis',
(int) 44 => 'Bladder',
(int) 45 => 'Heart',
(int) 46 => 'Lung',
(int) 47 => 'Ovary',
(int) 48 => 'Colon',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Ovary',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Brain',
(int) 61 => 'Breast',
(int) 62 => 'Placenta',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Lung',
(int) 67 => 'Adipose',
(int) 68 => 'Adrenal',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Heart',
(int) 72 => 'Lung',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adrenal',
(int) 77 => 'Breast',
(int) 78 => 'Colon',
(int) 79 => 'Kidney',
(int) 80 => 'Lung',
(int) 81 => 'Muscle',
(int) 82 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0003',
'tax_id' => '10090',
'chromosome' => '5',
'seq_start' => '114314941',
'seq_end' => '114380515',
'region_length' => '65574',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000066952-ENSMUSG00000001098'
)
)
$gene_el = array(
'ENST00000538041' => array(
'Adrenal' => array(
'average_FPKM' => '0.057',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.131',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.033',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '3.680',
'stddev_FPKM' => '0.12'
)
)
)
$gene_key = 'ENSG00000256560'
$is_first = false
$tran_el = array(
'Adrenal' => array(
'average_FPKM' => '0.057',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.131',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.033',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '3.680',
'stddev_FPKM' => '0.12'
)
)
$tran_key = 'ENST00000538041'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0001GP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSDARG00000017115' => 'potassium channel tetramerisation domain containing 10',
'ENSDARG00000061968' => 'myosin IHa',
'ENSG00000110906' => 'potassium channel tetramerization domain containing 10',
'ENSG00000151148' => 'ubiquitin protein ligase E3B',
'ENSG00000174527' => 'myosin IH',
'ENSG00000255655' => null,
'ENSG00000256560' => 'long intergenic non-protein coding RNA 1486',
'ENSMUSG00000001098' => 'potassium channel tetramerisation domain containing 10',
'ENSMUSG00000066952' => 'myosin 1H',
'ENSMUSG00000085590' => 'predicted gene 13789'
),
'gene_name_arr' => array(
'ENSDARG00000017115' => 'kctd10',
'ENSDARG00000061968' => 'myo1ha',
'ENSG00000110906' => 'KCTD10',
'ENSG00000151148' => 'UBE3B',
'ENSG00000174527' => 'MYO1H',
'ENSG00000255655' => 'RP11-256L11.3',
'ENSG00000256560' => 'LINC01486',
'ENSMUSG00000001098' => 'Kctd10',
'ENSMUSG00000066952' => 'Myo1h',
'ENSMUSG00000085590' => 'Gm13789'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 11 => 'Bladder',
(int) 16 => 'Brain',
(int) 24 => 'Breast',
(int) 32 => 'Colon',
(int) 41 => 'Heart',
(int) 51 => 'Kidney',
(int) 62 => 'Liver',
(int) 71 => 'Lung',
(int) 79 => 'Muscle',
(int) 86 => 'Ovary',
(int) 95 => 'Placenta',
(int) 104 => '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) 54,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENSDART00000011596' => array(
'start' => '21222682',
'end' => '21226831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-201'
),
'ENSDART00000136259' => array(
'start' => '21219811',
'end' => '21228258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-001'
),
'ENSDART00000141268' => array(
'start' => '21226006',
'end' => '21228277',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'kctd10-002'
),
'ENSDART00000089014' => array(
'start' => '21197250',
'end' => '21217843',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-201'
),
'ENSDART00000146215' => array(
'start' => '21197272',
'end' => '21217777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-001'
),
'ENST00000228495' => array(
'start' => '109448656',
'end' => '109477544',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-001'
),
'ENST00000440541' => array(
'start' => '109449971',
'end' => '109477359',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-002'
),
'ENST00000535546' => array(
'start' => '109451634',
'end' => '109458982',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-012'
),
'ENST00000535747' => array(
'start' => '109460326',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-010'
),
'ENST00000537165' => array(
'start' => '109451287',
'end' => '109477300',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-003'
),
'ENST00000538161' => array(
'start' => '109451404',
'end' => '109464895',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'KCTD10-005'
),
'ENST00000538377' => array(
'start' => '109469062',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-009'
),
'ENST00000540089' => array(
'start' => '109449961',
'end' => '109458985',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-007'
),
'ENST00000540355' => array(
'start' => '109451682',
'end' => '109458871',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-013'
),
'ENST00000540402' => array(
'start' => '109451641',
'end' => '109457975',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-014'
),
'ENST00000540411' => array(
'start' => '109451595',
'end' => '109469724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-004'
),
'ENST00000541077' => array(
'start' => '109456222',
'end' => '109477289',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-008'
),
'ENST00000542262' => array(
'start' => '109456243',
'end' => '109477305',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-016'
),
'ENST00000542858' => array(
'start' => '109456285',
'end' => '109477300',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-015'
),
'ENST00000542954' => array(
'start' => '109451630',
'end' => '109460395',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-011'
),
'ENST00000545759' => array(
'start' => '109449971',
'end' => '109459629',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-006'
),
'ENST00000340074' => array(
'start' => '109477652',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-005'
),
'ENST00000342494' => array(
'start' => '109477642',
'end' => '109536702',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-001'
),
'ENST00000434735' => array(
'start' => '109477402',
'end' => '109536705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-002'
),
'ENST00000449510' => array(
'start' => '109477653',
'end' => '109534654',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'UBE3B-008'
),
'ENST00000535900' => array(
'start' => '109501425',
'end' => '109511315',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'UBE3B-014'
),
'ENST00000536398' => array(
'start' => '109477635',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-004'
),
'ENST00000537063' => array(
'start' => '109477655',
'end' => '109492737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-007'
),
'ENST00000538070' => array(
'start' => '109519556',
'end' => '109535071',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-010'
),
'ENST00000539584' => array(
'start' => '109508450',
'end' => '109524095',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-012'
),
'ENST00000539599' => array(
'start' => '109477638',
'end' => '109526404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-006'
),
'ENST00000539843' => array(
'start' => '109477628',
'end' => '109484021',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-011'
),
'ENST00000540230' => array(
'start' => '109477653',
'end' => '109491149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-003'
),
'ENST00000605142' => array(
'start' => '109529930',
'end' => '109534538',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-009'
),
'ENST00000310903' => array(
'start' => '109347903',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-001'
),
'ENST00000431443' => array(
'start' => '109388719',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-201'
),
'ENST00000457826' => array(
'start' => '109440567',
'end' => '109443670',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-005'
),
'ENST00000542268' => array(
'start' => '109439537',
'end' => '109447455',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-003'
),
'ENST00000542883' => array(
'start' => '109401405',
'end' => '109407881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYO1H-004'
),
'ENST00000543960' => array(
'start' => '109443562',
'end' => '109455523',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYO1H-006'
),
'ENST00000539987' => array(
'start' => '109445410',
'end' => '109447497',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-256L11.3-001'
),
'ENST00000538041' => array(
'start' => '109354083',
'end' => '109359488',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01486-001'
),
'ENSMUST00000001125' => array(
'start' => '114365622',
'end' => '114380483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-002'
),
'ENSMUST00000102581' => array(
'start' => '114363567',
'end' => '114380515',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-001'
),
'ENSMUST00000123538' => array(
'start' => '114366984',
'end' => '114369252',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-005'
),
'ENSMUST00000132646' => array(
'start' => '114366883',
'end' => '114368669',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-007'
),
'ENSMUST00000134173' => array(
'start' => '114365706',
'end' => '114372142',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Kctd10-004'
),
'ENSMUST00000134532' => array(
'start' => '114364462',
'end' => '114380489',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Kctd10-003'
),
'ENSMUST00000135170' => array(
'start' => '114366903',
'end' => '114370207',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-006'
),
'ENSMUST00000124316' => array(
'start' => '114314941',
'end' => '114362208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-001'
),
'ENSMUST00000128379' => array(
'start' => '114357406',
'end' => '114359735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-003'
),
'ENSMUST00000152694' => array(
'start' => '114356815',
'end' => '114364576',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-002'
),
'ENSMUST00000169347' => array(
'start' => '114314941',
'end' => '114364576',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-201'
),
'ENSMUST00000125230' => array(
'start' => '114363415',
'end' => '114365357',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm13789-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
'ENSDARG00000017115' => array(
[maximum depth reached]
),
'ENSDARG00000061968' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Brain',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Muscle',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Brain',
(int) 11 => 'Kidney',
(int) 12 => 'Liver'
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
'ENSG00000110906' => array(
[maximum depth reached]
),
'ENSG00000174527' => array(
[maximum depth reached]
),
'ENSG00000255655' => array(
[maximum depth reached]
),
'ENSG00000256560' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adipose',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Adipose',
(int) 22 => 'Bladder',
(int) 23 => 'Brain',
(int) 24 => 'Breast',
(int) 25 => 'Colon',
(int) 26 => 'Heart',
(int) 27 => 'Kidney',
(int) 28 => 'Liver',
(int) 29 => 'Lung',
(int) 30 => 'Muscle',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Placenta',
(int) 43 => 'Testis',
(int) 44 => 'Bladder',
(int) 45 => 'Heart',
(int) 46 => 'Lung',
(int) 47 => 'Ovary',
(int) 48 => 'Colon',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Ovary',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Brain',
(int) 61 => 'Breast',
(int) 62 => 'Placenta',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Lung',
(int) 67 => 'Adipose',
(int) 68 => 'Adrenal',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Heart',
(int) 72 => 'Lung',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adrenal',
(int) 77 => 'Breast',
(int) 78 => 'Colon',
(int) 79 => 'Kidney',
(int) 80 => 'Lung',
(int) 81 => 'Muscle',
(int) 82 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSDARG00000017115' => 'potassium channel tetramerisation domain containing 10',
'ENSDARG00000061968' => 'myosin IHa',
'ENSG00000110906' => 'potassium channel tetramerization domain containing 10',
'ENSG00000151148' => 'ubiquitin protein ligase E3B',
'ENSG00000174527' => 'myosin IH',
'ENSG00000255655' => null,
'ENSG00000256560' => 'long intergenic non-protein coding RNA 1486',
'ENSMUSG00000001098' => 'potassium channel tetramerisation domain containing 10',
'ENSMUSG00000066952' => 'myosin 1H',
'ENSMUSG00000085590' => 'predicted gene 13789'
)
$gene_name_arr = array(
'ENSDARG00000017115' => 'kctd10',
'ENSDARG00000061968' => 'myo1ha',
'ENSG00000110906' => 'KCTD10',
'ENSG00000151148' => 'UBE3B',
'ENSG00000174527' => 'MYO1H',
'ENSG00000255655' => 'RP11-256L11.3',
'ENSG00000256560' => 'LINC01486',
'ENSMUSG00000001098' => 'Kctd10',
'ENSMUSG00000066952' => 'Myo1h',
'ENSMUSG00000085590' => 'Gm13789'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0001',
'tax_id' => '7955',
'chromosome' => '5',
'seq_start' => '21197250',
'seq_end' => '21228277',
'region_length' => '31027',
'region_type' => 'CGP',
'el_id' => 'ENSDARG00000061968-ENSDARG00000017115'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0002',
'tax_id' => '9606',
'chromosome' => '12',
'seq_start' => '109347903',
'seq_end' => '109477544',
'region_length' => '129641',
'region_type' => 'CGP',
'el_id' => 'ENSG00000174527-ENSG00000110906'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0003',
'tax_id' => '10090',
'chromosome' => '5',
'seq_start' => '114314941',
'seq_end' => '114380515',
'region_length' => '65574',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000066952-ENSMUSG00000001098'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 11 => 'Bladder',
(int) 16 => 'Brain',
(int) 24 => 'Breast',
(int) 32 => 'Colon',
(int) 41 => 'Heart',
(int) 51 => 'Kidney',
(int) 62 => 'Liver',
(int) 71 => 'Lung',
(int) 79 => 'Muscle',
(int) 86 => 'Ovary',
(int) 95 => 'Placenta',
(int) 104 => '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) 54
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENSDART00000011596' => array(
'start' => '21222682',
'end' => '21226831',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-201'
),
'ENSDART00000136259' => array(
'start' => '21219811',
'end' => '21228258',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'kctd10-001'
),
'ENSDART00000141268' => array(
'start' => '21226006',
'end' => '21228277',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'kctd10-002'
),
'ENSDART00000089014' => array(
'start' => '21197250',
'end' => '21217843',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-201'
),
'ENSDART00000146215' => array(
'start' => '21197272',
'end' => '21217777',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'myo1ha-001'
),
'ENST00000228495' => array(
'start' => '109448656',
'end' => '109477544',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-001'
),
'ENST00000440541' => array(
'start' => '109449971',
'end' => '109477359',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-002'
),
'ENST00000535546' => array(
'start' => '109451634',
'end' => '109458982',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-012'
),
'ENST00000535747' => array(
'start' => '109460326',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-010'
),
'ENST00000537165' => array(
'start' => '109451287',
'end' => '109477300',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-003'
),
'ENST00000538161' => array(
'start' => '109451404',
'end' => '109464895',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'KCTD10-005'
),
'ENST00000538377' => array(
'start' => '109469062',
'end' => '109477300',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-009'
),
'ENST00000540089' => array(
'start' => '109449961',
'end' => '109458985',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-007'
),
'ENST00000540355' => array(
'start' => '109451682',
'end' => '109458871',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-013'
),
'ENST00000540402' => array(
'start' => '109451641',
'end' => '109457975',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-014'
),
'ENST00000540411' => array(
'start' => '109451595',
'end' => '109469724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-004'
),
'ENST00000541077' => array(
'start' => '109456222',
'end' => '109477289',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'KCTD10-008'
),
'ENST00000542262' => array(
'start' => '109456243',
'end' => '109477305',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-016'
),
'ENST00000542858' => array(
'start' => '109456285',
'end' => '109477300',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-015'
),
'ENST00000542954' => array(
'start' => '109451630',
'end' => '109460395',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'KCTD10-011'
),
'ENST00000545759' => array(
'start' => '109449971',
'end' => '109459629',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'KCTD10-006'
),
'ENST00000340074' => array(
'start' => '109477652',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-005'
),
'ENST00000342494' => array(
'start' => '109477642',
'end' => '109536702',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-001'
),
'ENST00000434735' => array(
'start' => '109477402',
'end' => '109536705',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-002'
),
'ENST00000449510' => array(
'start' => '109477653',
'end' => '109534654',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'UBE3B-008'
),
'ENST00000535900' => array(
'start' => '109501425',
'end' => '109511315',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'UBE3B-014'
),
'ENST00000536398' => array(
'start' => '109477635',
'end' => '109490722',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-004'
),
'ENST00000537063' => array(
'start' => '109477655',
'end' => '109492737',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-007'
),
'ENST00000538070' => array(
'start' => '109519556',
'end' => '109535071',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-010'
),
'ENST00000539584' => array(
'start' => '109508450',
'end' => '109524095',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-012'
),
'ENST00000539599' => array(
'start' => '109477638',
'end' => '109526404',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-006'
),
'ENST00000539843' => array(
'start' => '109477628',
'end' => '109484021',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'UBE3B-011'
),
'ENST00000540230' => array(
'start' => '109477653',
'end' => '109491149',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-003'
),
'ENST00000605142' => array(
'start' => '109529930',
'end' => '109534538',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'UBE3B-009'
),
'ENST00000310903' => array(
'start' => '109347903',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-001'
),
'ENST00000431443' => array(
'start' => '109388719',
'end' => '109448371',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'MYO1H-201'
),
'ENST00000457826' => array(
'start' => '109440567',
'end' => '109443670',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-005'
),
'ENST00000542268' => array(
'start' => '109439537',
'end' => '109447455',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'MYO1H-003'
),
'ENST00000542883' => array(
'start' => '109401405',
'end' => '109407881',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'MYO1H-004'
),
'ENST00000543960' => array(
'start' => '109443562',
'end' => '109455523',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'MYO1H-006'
),
'ENST00000539987' => array(
'start' => '109445410',
'end' => '109447497',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-256L11.3-001'
),
'ENST00000538041' => array(
'start' => '109354083',
'end' => '109359488',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01486-001'
),
'ENSMUST00000001125' => array(
'start' => '114365622',
'end' => '114380483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-002'
),
'ENSMUST00000102581' => array(
'start' => '114363567',
'end' => '114380515',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Kctd10-001'
),
'ENSMUST00000123538' => array(
'start' => '114366984',
'end' => '114369252',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-005'
),
'ENSMUST00000132646' => array(
'start' => '114366883',
'end' => '114368669',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-007'
),
'ENSMUST00000134173' => array(
'start' => '114365706',
'end' => '114372142',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Kctd10-004'
),
'ENSMUST00000134532' => array(
'start' => '114364462',
'end' => '114380489',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'Kctd10-003'
),
'ENSMUST00000135170' => array(
'start' => '114366903',
'end' => '114370207',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Kctd10-006'
),
'ENSMUST00000124316' => array(
'start' => '114314941',
'end' => '114362208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-001'
),
'ENSMUST00000128379' => array(
'start' => '114357406',
'end' => '114359735',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-003'
),
'ENSMUST00000152694' => array(
'start' => '114356815',
'end' => '114364576',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Myo1h-002'
),
'ENSMUST00000169347' => array(
'start' => '114314941',
'end' => '114364576',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Myo1h-201'
),
'ENSMUST00000125230' => array(
'start' => '114363415',
'end' => '114365357',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Gm13789-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0001GP_0001' => array(
'genes_in_region' => array(
'ENSDARG00000017115' => array(
[maximum depth reached]
),
'ENSDARG00000061968' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Heart',
(int) 1 => 'Kidney',
(int) 2 => 'Liver',
(int) 3 => 'Brain',
(int) 4 => 'Heart',
(int) 5 => 'Kidney',
(int) 6 => 'Liver',
(int) 7 => 'Muscle',
(int) 8 => 'Kidney',
(int) 9 => 'Liver',
(int) 10 => 'Brain',
(int) 11 => 'Kidney',
(int) 12 => 'Liver'
)
),
'CIL_0001GP_0002' => array(
'genes_in_region' => array(
'ENSG00000110906' => array(
[maximum depth reached]
),
'ENSG00000174527' => array(
[maximum depth reached]
),
'ENSG00000255655' => array(
[maximum depth reached]
),
'ENSG00000256560' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Brain',
(int) 3 => 'Breast',
(int) 4 => 'Colon',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Lung',
(int) 9 => 'Muscle',
(int) 10 => 'Ovary',
(int) 11 => 'Placenta',
(int) 12 => 'Testis',
(int) 13 => 'Adipose',
(int) 14 => 'Adrenal',
(int) 15 => 'Breast',
(int) 16 => 'Colon',
(int) 17 => 'Liver',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Adipose',
(int) 22 => 'Bladder',
(int) 23 => 'Brain',
(int) 24 => 'Breast',
(int) 25 => 'Colon',
(int) 26 => 'Heart',
(int) 27 => 'Kidney',
(int) 28 => 'Liver',
(int) 29 => 'Lung',
(int) 30 => 'Muscle',
(int) 31 => 'Ovary',
(int) 32 => 'Placenta',
(int) 33 => 'Testis',
(int) 34 => 'Adrenal',
(int) 35 => 'Bladder',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Liver',
(int) 39 => 'Lung',
(int) 40 => 'Muscle',
(int) 41 => 'Ovary',
(int) 42 => 'Placenta',
(int) 43 => 'Testis',
(int) 44 => 'Bladder',
(int) 45 => 'Heart',
(int) 46 => 'Lung',
(int) 47 => 'Ovary',
(int) 48 => 'Colon',
(int) 49 => 'Muscle',
(int) 50 => 'Testis',
(int) 51 => 'Bladder',
(int) 52 => 'Brain',
(int) 53 => 'Breast',
(int) 54 => 'Colon',
(int) 55 => 'Heart',
(int) 56 => 'Kidney',
(int) 57 => 'Ovary',
(int) 58 => 'Placenta',
(int) 59 => 'Testis',
(int) 60 => 'Brain',
(int) 61 => 'Breast',
(int) 62 => 'Placenta',
(int) 63 => 'Colon',
(int) 64 => 'Heart',
(int) 65 => 'Kidney',
(int) 66 => 'Lung',
(int) 67 => 'Adipose',
(int) 68 => 'Adrenal',
(int) 69 => 'Breast',
(int) 70 => 'Colon',
(int) 71 => 'Heart',
(int) 72 => 'Lung',
(int) 73 => 'Ovary',
(int) 74 => 'Placenta',
(int) 75 => 'Testis',
(int) 76 => 'Adrenal',
(int) 77 => 'Breast',
(int) 78 => 'Colon',
(int) 79 => 'Kidney',
(int) 80 => 'Lung',
(int) 81 => 'Muscle',
(int) 82 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0001GP_0003',
'tax_id' => '10090',
'chromosome' => '5',
'seq_start' => '114314941',
'seq_end' => '114380515',
'region_length' => '65574',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000066952-ENSMUSG00000001098'
)
)
$gene_el = array(
'ENST00000538041' => array(
'Adrenal' => array(
'average_FPKM' => '0.057',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.131',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.033',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '3.680',
'stddev_FPKM' => '0.12'
)
)
)
$gene_key = 'ENSG00000256560'
$is_first = false
$tran_el = array(
'Adrenal' => array(
'average_FPKM' => '0.057',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.131',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.038',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.033',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '3.680',
'stddev_FPKM' => '0.12'
)
)
$tran_key = 'ENST00000538041'
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
(kctd10)