| Source ID |
Type |
Tax ID |
Position |
| RNF220 |
UCNEbase |
7955 |
8:18840980-18844700  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007OR_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_0007OR_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000117419' => 'ERI1 exoribonuclease family member 3',
'ENSG00000187147' => 'ring finger protein 220',
'ENSG00000199385' => 'RNA, U6 small nuclear 369, pseudogene',
'ENSG00000252146' => null,
'ENSG00000263381' => 'microRNA 5584',
'ENSMUSG00000028677' => 'ring finger protein 220',
'ENSMUSG00000033423' => 'exoribonuclease 3',
'ENSMUSG00000083446' => 'predicted gene 12826',
'ENSMUSG00000086876' => 'predicted gene 12828',
'ENSMUSG00000087228' => 'predicted gene 12827',
'ENSMUSG00000087807' => 'predicted gene, 25559',
'ENSDARG00000060929' => 'ring finger protein 220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
),
'gene_name_arr' => array(
'ENSG00000117419' => 'ERI3',
'ENSG00000187147' => 'RNF220',
'ENSG00000199385' => 'RNU6-369P',
'ENSG00000252146' => 'AL390776.1',
'ENSG00000263381' => 'MIR5584',
'ENSMUSG00000028677' => 'Rnf220',
'ENSMUSG00000033423' => 'Eri3',
'ENSMUSG00000083446' => 'Gm12826',
'ENSMUSG00000086876' => 'Gm12828',
'ENSMUSG00000087228' => 'Gm12827',
'ENSMUSG00000087807' => 'Gm25559',
'ENSDARG00000060929' => 'rnf220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 14 => 'Brain',
(int) 27 => 'Breast',
(int) 34 => 'Colon',
(int) 43 => 'Heart',
(int) 52 => 'Kidney',
(int) 63 => 'Liver',
(int) 72 => 'Lung',
(int) 81 => 'Muscle',
(int) 89 => 'Ovary',
(int) 104 => 'Placenta',
(int) 112 => '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(
'ENST00000372257' => array(
'start' => '44221070',
'end' => '44355208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-001'
),
'ENST00000372259' => array(
'start' => '44221070',
'end' => '44323043',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-003'
),
'ENST00000452396' => array(
'start' => '44247986',
'end' => '44355260',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-004'
),
'ENST00000456170' => array(
'start' => '44221070',
'end' => '44319750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-006'
),
'ENST00000457571' => array(
'start' => '44308310',
'end' => '44355249',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-002'
),
'ENST00000462341' => array(
'start' => '44221593',
'end' => '44256921',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-009'
),
'ENST00000479101' => array(
'start' => '44221504',
'end' => '44248002',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-007'
),
'ENST00000489710' => array(
'start' => '44221429',
'end' => '44247966',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-008'
),
'ENST00000495828' => array(
'start' => '44284830',
'end' => '44355238',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-005'
),
'ENST00000335497' => array(
'start' => '44631732',
'end' => '44649769',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-014'
),
'ENST00000355387' => array(
'start' => '44405194',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-001'
),
'ENST00000361799' => array(
'start' => '44405288',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-002'
),
'ENST00000372247' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-201'
),
'ENST00000440132' => array(
'start' => '44631732',
'end' => '44649957',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-013'
),
'ENST00000443020' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-202'
),
'ENST00000453863' => array(
'start' => '44626326',
'end' => '44636152',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-010'
),
'ENST00000470498' => array(
'start' => '44412698',
'end' => '44419872',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-009'
),
'ENST00000471494' => array(
'start' => '44631975',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-012'
),
'ENST00000474064' => array(
'start' => '44631968',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-003'
),
'ENST00000474394' => array(
'start' => '44638296',
'end' => '44650890',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-017'
),
'ENST00000474956' => array(
'start' => '44648308',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-005'
),
'ENST00000475378' => array(
'start' => '44632255',
'end' => '44650808',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-015'
),
'ENST00000480686' => array(
'start' => '44643132',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-004'
),
'ENST00000484745' => array(
'start' => '44632645',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-006'
),
'ENST00000487332' => array(
'start' => '44408702',
'end' => '44412121',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-007'
),
'ENST00000488865' => array(
'start' => '44631984',
'end' => '44636495',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RNF220-016'
),
'ENST00000496262' => array(
'start' => '44614265',
'end' => '44627057',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-008'
),
'ENST00000497469' => array(
'start' => '44632235',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-011'
),
'ENST00000362515' => array(
'start' => '44390722',
'end' => '44390823',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-369P-201'
),
'ENST00000516337' => array(
'start' => '44333105',
'end' => '44333178',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL390776.1-201'
),
'ENST00000581357' => array(
'start' => '44545493',
'end' => '44545552',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR5584-201'
),
'ENSMUST00000030439' => array(
'start' => '117271463',
'end' => '117497052',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-001'
),
'ENSMUST00000094853' => array(
'start' => '117271927',
'end' => '117375457',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-002'
),
'ENSMUST00000102690' => array(
'start' => '117271464',
'end' => '117288772',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-006'
),
'ENSMUST00000123222' => array(
'start' => '117490235',
'end' => '117495011',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-007'
),
'ENSMUST00000128122' => array(
'start' => '117277427',
'end' => '117289830',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-009'
),
'ENSMUST00000133971' => array(
'start' => '117285379',
'end' => '117289111',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-004'
),
'ENSMUST00000138435' => array(
'start' => '117306058',
'end' => '117496949',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-003'
),
'ENSMUST00000150148' => array(
'start' => '117285889',
'end' => '117300028',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-008'
),
'ENSMUST00000151829' => array(
'start' => '117276519',
'end' => '117285474',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-010'
),
'ENSMUST00000154974' => array(
'start' => '117285092',
'end' => '117289442',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-005'
),
'ENSMUST00000037127' => array(
'start' => '117550365',
'end' => '117674297',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-001'
),
'ENSMUST00000125312' => array(
'start' => '117582687',
'end' => '117615582',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-002'
),
'ENSMUST00000134379' => array(
'start' => '117637338',
'end' => '117674281',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-004'
),
'ENSMUST00000134453' => array(
'start' => '117589078',
'end' => '117615241',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-003'
),
'ENSMUST00000144373' => array(
'start' => '117552610',
'end' => '117582717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-005'
),
'ENSMUST00000146384' => array(
'start' => '117564758',
'end' => '117674297',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-006'
),
'ENSMUST00000121841' => array(
'start' => '117513823',
'end' => '117514201',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm12826-001'
),
'ENSMUST00000136115' => array(
'start' => '117445950',
'end' => '117455040',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm12828-001'
),
'ENSMUST00000132690' => array(
'start' => '117496452',
'end' => '117500602',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm12827-001'
),
'ENSMUST00000157182' => array(
'start' => '117570134',
'end' => '117570207',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm25559-201'
),
'ENSDART00000086340' => array(
'start' => '32907501',
'end' => '32934615',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-001'
),
'ENSDART00000134651' => array(
'start' => '32770235',
'end' => '32934069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-006'
),
'ENSDART00000136330' => array(
'start' => '32907476',
'end' => '32918272',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-004'
),
'ENSDART00000139295' => array(
'start' => '32907478',
'end' => '32926397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-005'
),
'ENSDART00000143879' => array(
'start' => '32907459',
'end' => '32918243',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'rnf220a-002'
),
'ENSDART00000145588' => array(
'start' => '32907457',
'end' => '32912539',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-003'
),
'ENSDART00000154101' => array(
'start' => '32584462',
'end' => '32743920',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-001'
),
'ENSDART00000156961' => array(
'start' => '32584585',
'end' => '32609880',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-003'
),
'ENSDART00000157368' => array(
'start' => '32584522',
'end' => '32634481',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-002'
),
'ENSDART00000153813' => array(
'start' => '32755960',
'end' => '32759539',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.2-001'
)
),
'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_0007OR_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007OR_0001' => array(
'genes_in_region' => array(
'ENSG00000117419' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(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 => 'Colon',
(int) 13 => 'Adrenal',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Muscle',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Bladder',
(int) 24 => 'Colon',
(int) 25 => 'Ovary',
(int) 26 => 'Brain',
(int) 27 => 'Kidney',
(int) 28 => 'Ovary',
(int) 29 => 'Brain',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Lung',
(int) 35 => 'Kidney',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Bladder',
(int) 40 => 'Brain',
(int) 41 => 'Muscle',
(int) 42 => 'Lung',
(int) 43 => 'Colon',
(int) 44 => 'Kidney',
(int) 45 => 'Lung',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Liver',
(int) 49 => 'Muscle'
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000028677' => array(
[maximum depth reached]
),
'ENSMUSG00000033423' => array(
[maximum depth reached]
),
'ENSMUSG00000083446' => array(
[maximum depth reached]
),
'ENSMUSG00000086876' => array(
[maximum depth reached]
),
'ENSMUSG00000087807' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(int) 2 => 'Testis',
(int) 3 => 'Testis',
(int) 4 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 6 => 'Bladder',
(int) 7 => 'Brain',
(int) 8 => 'Breast',
(int) 9 => 'Colon',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Muscle',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adrenal',
(int) 37 => 'Breast',
(int) 38 => 'Colon',
(int) 39 => 'Lung',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Breast',
(int) 43 => 'Colon',
(int) 44 => 'Heart',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis',
(int) 50 => 'Adipose',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Liver',
(int) 54 => 'Ovary',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Liver',
(int) 58 => 'Ovary',
(int) 59 => 'Testis'
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
'ENSDARG00000060929' => array(
[maximum depth reached]
),
'ENSDARG00000097707' => array(
[maximum depth reached]
),
'ENSDARG00000097868' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Brain',
(int) 6 => 'Heart',
(int) 7 => 'Brain',
(int) 8 => 'Heart',
(int) 9 => 'Brain',
(int) 10 => 'Kidney',
(int) 11 => 'Kidney',
(int) 12 => 'Brain',
(int) 13 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000117419' => 'ERI1 exoribonuclease family member 3',
'ENSG00000187147' => 'ring finger protein 220',
'ENSG00000199385' => 'RNA, U6 small nuclear 369, pseudogene',
'ENSG00000252146' => null,
'ENSG00000263381' => 'microRNA 5584',
'ENSMUSG00000028677' => 'ring finger protein 220',
'ENSMUSG00000033423' => 'exoribonuclease 3',
'ENSMUSG00000083446' => 'predicted gene 12826',
'ENSMUSG00000086876' => 'predicted gene 12828',
'ENSMUSG00000087228' => 'predicted gene 12827',
'ENSMUSG00000087807' => 'predicted gene, 25559',
'ENSDARG00000060929' => 'ring finger protein 220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
)
$gene_name_arr = array(
'ENSG00000117419' => 'ERI3',
'ENSG00000187147' => 'RNF220',
'ENSG00000199385' => 'RNU6-369P',
'ENSG00000252146' => 'AL390776.1',
'ENSG00000263381' => 'MIR5584',
'ENSMUSG00000028677' => 'Rnf220',
'ENSMUSG00000033423' => 'Eri3',
'ENSMUSG00000083446' => 'Gm12826',
'ENSMUSG00000086876' => 'Gm12828',
'ENSMUSG00000087228' => 'Gm12827',
'ENSMUSG00000087807' => 'Gm25559',
'ENSDARG00000060929' => 'rnf220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '44250002',
'seq_end' => '44569572',
'region_length' => '319570',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0002',
'tax_id' => '10090',
'chromosome' => '4',
'seq_start' => '117349630',
'seq_end' => '117647360',
'region_length' => '297730',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0003',
'tax_id' => '7955',
'chromosome' => '2',
'seq_start' => '32702297',
'seq_end' => '32845970',
'region_length' => '143673',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0004',
'tax_id' => '7955',
'chromosome' => '8',
'seq_start' => '18840980',
'seq_end' => '18844700',
'region_length' => '3720',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 14 => 'Brain',
(int) 27 => 'Breast',
(int) 34 => 'Colon',
(int) 43 => 'Heart',
(int) 52 => 'Kidney',
(int) 63 => 'Liver',
(int) 72 => 'Lung',
(int) 81 => 'Muscle',
(int) 89 => 'Ovary',
(int) 104 => 'Placenta',
(int) 112 => '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(
'ENST00000372257' => array(
'start' => '44221070',
'end' => '44355208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-001'
),
'ENST00000372259' => array(
'start' => '44221070',
'end' => '44323043',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-003'
),
'ENST00000452396' => array(
'start' => '44247986',
'end' => '44355260',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-004'
),
'ENST00000456170' => array(
'start' => '44221070',
'end' => '44319750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-006'
),
'ENST00000457571' => array(
'start' => '44308310',
'end' => '44355249',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-002'
),
'ENST00000462341' => array(
'start' => '44221593',
'end' => '44256921',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-009'
),
'ENST00000479101' => array(
'start' => '44221504',
'end' => '44248002',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-007'
),
'ENST00000489710' => array(
'start' => '44221429',
'end' => '44247966',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-008'
),
'ENST00000495828' => array(
'start' => '44284830',
'end' => '44355238',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-005'
),
'ENST00000335497' => array(
'start' => '44631732',
'end' => '44649769',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-014'
),
'ENST00000355387' => array(
'start' => '44405194',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-001'
),
'ENST00000361799' => array(
'start' => '44405288',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-002'
),
'ENST00000372247' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-201'
),
'ENST00000440132' => array(
'start' => '44631732',
'end' => '44649957',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-013'
),
'ENST00000443020' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-202'
),
'ENST00000453863' => array(
'start' => '44626326',
'end' => '44636152',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-010'
),
'ENST00000470498' => array(
'start' => '44412698',
'end' => '44419872',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-009'
),
'ENST00000471494' => array(
'start' => '44631975',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-012'
),
'ENST00000474064' => array(
'start' => '44631968',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-003'
),
'ENST00000474394' => array(
'start' => '44638296',
'end' => '44650890',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-017'
),
'ENST00000474956' => array(
'start' => '44648308',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-005'
),
'ENST00000475378' => array(
'start' => '44632255',
'end' => '44650808',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-015'
),
'ENST00000480686' => array(
'start' => '44643132',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-004'
),
'ENST00000484745' => array(
'start' => '44632645',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-006'
),
'ENST00000487332' => array(
'start' => '44408702',
'end' => '44412121',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-007'
),
'ENST00000488865' => array(
'start' => '44631984',
'end' => '44636495',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RNF220-016'
),
'ENST00000496262' => array(
'start' => '44614265',
'end' => '44627057',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-008'
),
'ENST00000497469' => array(
'start' => '44632235',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-011'
),
'ENST00000362515' => array(
'start' => '44390722',
'end' => '44390823',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-369P-201'
),
'ENST00000516337' => array(
'start' => '44333105',
'end' => '44333178',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL390776.1-201'
),
'ENST00000581357' => array(
'start' => '44545493',
'end' => '44545552',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR5584-201'
),
'ENSMUST00000030439' => array(
'start' => '117271463',
'end' => '117497052',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-001'
),
'ENSMUST00000094853' => array(
'start' => '117271927',
'end' => '117375457',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-002'
),
'ENSMUST00000102690' => array(
'start' => '117271464',
'end' => '117288772',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-006'
),
'ENSMUST00000123222' => array(
'start' => '117490235',
'end' => '117495011',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-007'
),
'ENSMUST00000128122' => array(
'start' => '117277427',
'end' => '117289830',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-009'
),
'ENSMUST00000133971' => array(
'start' => '117285379',
'end' => '117289111',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-004'
),
'ENSMUST00000138435' => array(
'start' => '117306058',
'end' => '117496949',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-003'
),
'ENSMUST00000150148' => array(
'start' => '117285889',
'end' => '117300028',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-008'
),
'ENSMUST00000151829' => array(
'start' => '117276519',
'end' => '117285474',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-010'
),
'ENSMUST00000154974' => array(
'start' => '117285092',
'end' => '117289442',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-005'
),
'ENSMUST00000037127' => array(
'start' => '117550365',
'end' => '117674297',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-001'
),
'ENSMUST00000125312' => array(
'start' => '117582687',
'end' => '117615582',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-002'
),
'ENSMUST00000134379' => array(
'start' => '117637338',
'end' => '117674281',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-004'
),
'ENSMUST00000134453' => array(
'start' => '117589078',
'end' => '117615241',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-003'
),
'ENSMUST00000144373' => array(
'start' => '117552610',
'end' => '117582717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-005'
),
'ENSMUST00000146384' => array(
'start' => '117564758',
'end' => '117674297',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-006'
),
'ENSMUST00000121841' => array(
'start' => '117513823',
'end' => '117514201',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm12826-001'
),
'ENSMUST00000136115' => array(
'start' => '117445950',
'end' => '117455040',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm12828-001'
),
'ENSMUST00000132690' => array(
'start' => '117496452',
'end' => '117500602',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm12827-001'
),
'ENSMUST00000157182' => array(
'start' => '117570134',
'end' => '117570207',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm25559-201'
),
'ENSDART00000086340' => array(
'start' => '32907501',
'end' => '32934615',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-001'
),
'ENSDART00000134651' => array(
'start' => '32770235',
'end' => '32934069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-006'
),
'ENSDART00000136330' => array(
'start' => '32907476',
'end' => '32918272',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-004'
),
'ENSDART00000139295' => array(
'start' => '32907478',
'end' => '32926397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-005'
),
'ENSDART00000143879' => array(
'start' => '32907459',
'end' => '32918243',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'rnf220a-002'
),
'ENSDART00000145588' => array(
'start' => '32907457',
'end' => '32912539',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-003'
),
'ENSDART00000154101' => array(
'start' => '32584462',
'end' => '32743920',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-001'
),
'ENSDART00000156961' => array(
'start' => '32584585',
'end' => '32609880',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-003'
),
'ENSDART00000157368' => array(
'start' => '32584522',
'end' => '32634481',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-002'
),
'ENSDART00000153813' => array(
'start' => '32755960',
'end' => '32759539',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.2-001'
)
)
$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_0007OR_0001' => array(
'genes_in_region' => array(
'ENSG00000117419' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(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 => 'Colon',
(int) 13 => 'Adrenal',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Muscle',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Bladder',
(int) 24 => 'Colon',
(int) 25 => 'Ovary',
(int) 26 => 'Brain',
(int) 27 => 'Kidney',
(int) 28 => 'Ovary',
(int) 29 => 'Brain',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Lung',
(int) 35 => 'Kidney',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Bladder',
(int) 40 => 'Brain',
(int) 41 => 'Muscle',
(int) 42 => 'Lung',
(int) 43 => 'Colon',
(int) 44 => 'Kidney',
(int) 45 => 'Lung',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Liver',
(int) 49 => 'Muscle'
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000028677' => array(
[maximum depth reached]
),
'ENSMUSG00000033423' => array(
[maximum depth reached]
),
'ENSMUSG00000083446' => array(
[maximum depth reached]
),
'ENSMUSG00000086876' => array(
[maximum depth reached]
),
'ENSMUSG00000087807' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(int) 2 => 'Testis',
(int) 3 => 'Testis',
(int) 4 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 6 => 'Bladder',
(int) 7 => 'Brain',
(int) 8 => 'Breast',
(int) 9 => 'Colon',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Muscle',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adrenal',
(int) 37 => 'Breast',
(int) 38 => 'Colon',
(int) 39 => 'Lung',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Breast',
(int) 43 => 'Colon',
(int) 44 => 'Heart',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis',
(int) 50 => 'Adipose',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Liver',
(int) 54 => 'Ovary',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Liver',
(int) 58 => 'Ovary',
(int) 59 => 'Testis'
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
'ENSDARG00000060929' => array(
[maximum depth reached]
),
'ENSDARG00000097707' => array(
[maximum depth reached]
),
'ENSDARG00000097868' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Brain',
(int) 6 => 'Heart',
(int) 7 => 'Brain',
(int) 8 => 'Heart',
(int) 9 => 'Brain',
(int) 10 => 'Kidney',
(int) 11 => 'Kidney',
(int) 12 => 'Brain',
(int) 13 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0004',
'tax_id' => '7955',
'chromosome' => '8',
'seq_start' => '18840980',
'seq_end' => '18844700',
'region_length' => '3720',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
)
$gene_el = array(
'ENSDART00000153813' => array(
'Brain' => array(
'average_FPKM' => '0.437',
'stddev_FPKM' => '0.23'
),
'Muscle' => array(
'average_FPKM' => '0.223',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000097868'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.437',
'stddev_FPKM' => '0.23'
),
'Muscle' => array(
'average_FPKM' => '0.223',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000153813'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007OR_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000117419' => 'ERI1 exoribonuclease family member 3',
'ENSG00000187147' => 'ring finger protein 220',
'ENSG00000199385' => 'RNA, U6 small nuclear 369, pseudogene',
'ENSG00000252146' => null,
'ENSG00000263381' => 'microRNA 5584',
'ENSMUSG00000028677' => 'ring finger protein 220',
'ENSMUSG00000033423' => 'exoribonuclease 3',
'ENSMUSG00000083446' => 'predicted gene 12826',
'ENSMUSG00000086876' => 'predicted gene 12828',
'ENSMUSG00000087228' => 'predicted gene 12827',
'ENSMUSG00000087807' => 'predicted gene, 25559',
'ENSDARG00000060929' => 'ring finger protein 220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
),
'gene_name_arr' => array(
'ENSG00000117419' => 'ERI3',
'ENSG00000187147' => 'RNF220',
'ENSG00000199385' => 'RNU6-369P',
'ENSG00000252146' => 'AL390776.1',
'ENSG00000263381' => 'MIR5584',
'ENSMUSG00000028677' => 'Rnf220',
'ENSMUSG00000033423' => 'Eri3',
'ENSMUSG00000083446' => 'Gm12826',
'ENSMUSG00000086876' => 'Gm12828',
'ENSMUSG00000087228' => 'Gm12827',
'ENSMUSG00000087807' => 'Gm25559',
'ENSDARG00000060929' => 'rnf220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
),
'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]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 14 => 'Brain',
(int) 27 => 'Breast',
(int) 34 => 'Colon',
(int) 43 => 'Heart',
(int) 52 => 'Kidney',
(int) 63 => 'Liver',
(int) 72 => 'Lung',
(int) 81 => 'Muscle',
(int) 89 => 'Ovary',
(int) 104 => 'Placenta',
(int) 112 => '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(
'ENST00000372257' => array(
'start' => '44221070',
'end' => '44355208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-001'
),
'ENST00000372259' => array(
'start' => '44221070',
'end' => '44323043',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-003'
),
'ENST00000452396' => array(
'start' => '44247986',
'end' => '44355260',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-004'
),
'ENST00000456170' => array(
'start' => '44221070',
'end' => '44319750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-006'
),
'ENST00000457571' => array(
'start' => '44308310',
'end' => '44355249',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-002'
),
'ENST00000462341' => array(
'start' => '44221593',
'end' => '44256921',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-009'
),
'ENST00000479101' => array(
'start' => '44221504',
'end' => '44248002',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-007'
),
'ENST00000489710' => array(
'start' => '44221429',
'end' => '44247966',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-008'
),
'ENST00000495828' => array(
'start' => '44284830',
'end' => '44355238',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-005'
),
'ENST00000335497' => array(
'start' => '44631732',
'end' => '44649769',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-014'
),
'ENST00000355387' => array(
'start' => '44405194',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-001'
),
'ENST00000361799' => array(
'start' => '44405288',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-002'
),
'ENST00000372247' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-201'
),
'ENST00000440132' => array(
'start' => '44631732',
'end' => '44649957',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-013'
),
'ENST00000443020' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-202'
),
'ENST00000453863' => array(
'start' => '44626326',
'end' => '44636152',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-010'
),
'ENST00000470498' => array(
'start' => '44412698',
'end' => '44419872',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-009'
),
'ENST00000471494' => array(
'start' => '44631975',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-012'
),
'ENST00000474064' => array(
'start' => '44631968',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-003'
),
'ENST00000474394' => array(
'start' => '44638296',
'end' => '44650890',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-017'
),
'ENST00000474956' => array(
'start' => '44648308',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-005'
),
'ENST00000475378' => array(
'start' => '44632255',
'end' => '44650808',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-015'
),
'ENST00000480686' => array(
'start' => '44643132',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-004'
),
'ENST00000484745' => array(
'start' => '44632645',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-006'
),
'ENST00000487332' => array(
'start' => '44408702',
'end' => '44412121',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-007'
),
'ENST00000488865' => array(
'start' => '44631984',
'end' => '44636495',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RNF220-016'
),
'ENST00000496262' => array(
'start' => '44614265',
'end' => '44627057',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-008'
),
'ENST00000497469' => array(
'start' => '44632235',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-011'
),
'ENST00000362515' => array(
'start' => '44390722',
'end' => '44390823',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-369P-201'
),
'ENST00000516337' => array(
'start' => '44333105',
'end' => '44333178',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL390776.1-201'
),
'ENST00000581357' => array(
'start' => '44545493',
'end' => '44545552',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR5584-201'
),
'ENSMUST00000030439' => array(
'start' => '117271463',
'end' => '117497052',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-001'
),
'ENSMUST00000094853' => array(
'start' => '117271927',
'end' => '117375457',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-002'
),
'ENSMUST00000102690' => array(
'start' => '117271464',
'end' => '117288772',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-006'
),
'ENSMUST00000123222' => array(
'start' => '117490235',
'end' => '117495011',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-007'
),
'ENSMUST00000128122' => array(
'start' => '117277427',
'end' => '117289830',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-009'
),
'ENSMUST00000133971' => array(
'start' => '117285379',
'end' => '117289111',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-004'
),
'ENSMUST00000138435' => array(
'start' => '117306058',
'end' => '117496949',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-003'
),
'ENSMUST00000150148' => array(
'start' => '117285889',
'end' => '117300028',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-008'
),
'ENSMUST00000151829' => array(
'start' => '117276519',
'end' => '117285474',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-010'
),
'ENSMUST00000154974' => array(
'start' => '117285092',
'end' => '117289442',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-005'
),
'ENSMUST00000037127' => array(
'start' => '117550365',
'end' => '117674297',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-001'
),
'ENSMUST00000125312' => array(
'start' => '117582687',
'end' => '117615582',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-002'
),
'ENSMUST00000134379' => array(
'start' => '117637338',
'end' => '117674281',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-004'
),
'ENSMUST00000134453' => array(
'start' => '117589078',
'end' => '117615241',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-003'
),
'ENSMUST00000144373' => array(
'start' => '117552610',
'end' => '117582717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-005'
),
'ENSMUST00000146384' => array(
'start' => '117564758',
'end' => '117674297',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-006'
),
'ENSMUST00000121841' => array(
'start' => '117513823',
'end' => '117514201',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm12826-001'
),
'ENSMUST00000136115' => array(
'start' => '117445950',
'end' => '117455040',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm12828-001'
),
'ENSMUST00000132690' => array(
'start' => '117496452',
'end' => '117500602',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm12827-001'
),
'ENSMUST00000157182' => array(
'start' => '117570134',
'end' => '117570207',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm25559-201'
),
'ENSDART00000086340' => array(
'start' => '32907501',
'end' => '32934615',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-001'
),
'ENSDART00000134651' => array(
'start' => '32770235',
'end' => '32934069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-006'
),
'ENSDART00000136330' => array(
'start' => '32907476',
'end' => '32918272',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-004'
),
'ENSDART00000139295' => array(
'start' => '32907478',
'end' => '32926397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-005'
),
'ENSDART00000143879' => array(
'start' => '32907459',
'end' => '32918243',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'rnf220a-002'
),
'ENSDART00000145588' => array(
'start' => '32907457',
'end' => '32912539',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-003'
),
'ENSDART00000154101' => array(
'start' => '32584462',
'end' => '32743920',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-001'
),
'ENSDART00000156961' => array(
'start' => '32584585',
'end' => '32609880',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-003'
),
'ENSDART00000157368' => array(
'start' => '32584522',
'end' => '32634481',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-002'
),
'ENSDART00000153813' => array(
'start' => '32755960',
'end' => '32759539',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.2-001'
)
),
'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_0007OR_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007OR_0001' => array(
'genes_in_region' => array(
'ENSG00000117419' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(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 => 'Colon',
(int) 13 => 'Adrenal',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Muscle',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Bladder',
(int) 24 => 'Colon',
(int) 25 => 'Ovary',
(int) 26 => 'Brain',
(int) 27 => 'Kidney',
(int) 28 => 'Ovary',
(int) 29 => 'Brain',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Lung',
(int) 35 => 'Kidney',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Bladder',
(int) 40 => 'Brain',
(int) 41 => 'Muscle',
(int) 42 => 'Lung',
(int) 43 => 'Colon',
(int) 44 => 'Kidney',
(int) 45 => 'Lung',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Liver',
(int) 49 => 'Muscle'
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000028677' => array(
[maximum depth reached]
),
'ENSMUSG00000033423' => array(
[maximum depth reached]
),
'ENSMUSG00000083446' => array(
[maximum depth reached]
),
'ENSMUSG00000086876' => array(
[maximum depth reached]
),
'ENSMUSG00000087807' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(int) 2 => 'Testis',
(int) 3 => 'Testis',
(int) 4 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 6 => 'Bladder',
(int) 7 => 'Brain',
(int) 8 => 'Breast',
(int) 9 => 'Colon',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Muscle',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adrenal',
(int) 37 => 'Breast',
(int) 38 => 'Colon',
(int) 39 => 'Lung',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Breast',
(int) 43 => 'Colon',
(int) 44 => 'Heart',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis',
(int) 50 => 'Adipose',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Liver',
(int) 54 => 'Ovary',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Liver',
(int) 58 => 'Ovary',
(int) 59 => 'Testis'
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
'ENSDARG00000060929' => array(
[maximum depth reached]
),
'ENSDARG00000097707' => array(
[maximum depth reached]
),
'ENSDARG00000097868' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Brain',
(int) 6 => 'Heart',
(int) 7 => 'Brain',
(int) 8 => 'Heart',
(int) 9 => 'Brain',
(int) 10 => 'Kidney',
(int) 11 => 'Kidney',
(int) 12 => 'Brain',
(int) 13 => 'Muscle'
)
)
)
$gene_desc_arr = array(
'ENSG00000117419' => 'ERI1 exoribonuclease family member 3',
'ENSG00000187147' => 'ring finger protein 220',
'ENSG00000199385' => 'RNA, U6 small nuclear 369, pseudogene',
'ENSG00000252146' => null,
'ENSG00000263381' => 'microRNA 5584',
'ENSMUSG00000028677' => 'ring finger protein 220',
'ENSMUSG00000033423' => 'exoribonuclease 3',
'ENSMUSG00000083446' => 'predicted gene 12826',
'ENSMUSG00000086876' => 'predicted gene 12828',
'ENSMUSG00000087228' => 'predicted gene 12827',
'ENSMUSG00000087807' => 'predicted gene, 25559',
'ENSDARG00000060929' => 'ring finger protein 220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
)
$gene_name_arr = array(
'ENSG00000117419' => 'ERI3',
'ENSG00000187147' => 'RNF220',
'ENSG00000199385' => 'RNU6-369P',
'ENSG00000252146' => 'AL390776.1',
'ENSG00000263381' => 'MIR5584',
'ENSMUSG00000028677' => 'Rnf220',
'ENSMUSG00000033423' => 'Eri3',
'ENSMUSG00000083446' => 'Gm12826',
'ENSMUSG00000086876' => 'Gm12828',
'ENSMUSG00000087228' => 'Gm12827',
'ENSMUSG00000087807' => 'Gm25559',
'ENSDARG00000060929' => 'rnf220a',
'ENSDARG00000097707' => 'si:ch211-285i13.1',
'ENSDARG00000097868' => 'si:ch211-285i13.2'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0001',
'tax_id' => '9606',
'chromosome' => '1',
'seq_start' => '44250002',
'seq_end' => '44569572',
'region_length' => '319570',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0002',
'tax_id' => '10090',
'chromosome' => '4',
'seq_start' => '117349630',
'seq_end' => '117647360',
'region_length' => '297730',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0003',
'tax_id' => '7955',
'chromosome' => '2',
'seq_start' => '32702297',
'seq_end' => '32845970',
'region_length' => '143673',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0004',
'tax_id' => '7955',
'chromosome' => '8',
'seq_start' => '18840980',
'seq_end' => '18844700',
'region_length' => '3720',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 6 => 'Adrenal',
(int) 10 => 'Bladder',
(int) 14 => 'Brain',
(int) 27 => 'Breast',
(int) 34 => 'Colon',
(int) 43 => 'Heart',
(int) 52 => 'Kidney',
(int) 63 => 'Liver',
(int) 72 => 'Lung',
(int) 81 => 'Muscle',
(int) 89 => 'Ovary',
(int) 104 => 'Placenta',
(int) 112 => '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(
'ENST00000372257' => array(
'start' => '44221070',
'end' => '44355208',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-001'
),
'ENST00000372259' => array(
'start' => '44221070',
'end' => '44323043',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-003'
),
'ENST00000452396' => array(
'start' => '44247986',
'end' => '44355260',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-004'
),
'ENST00000456170' => array(
'start' => '44221070',
'end' => '44319750',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-006'
),
'ENST00000457571' => array(
'start' => '44308310',
'end' => '44355249',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ERI3-002'
),
'ENST00000462341' => array(
'start' => '44221593',
'end' => '44256921',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-009'
),
'ENST00000479101' => array(
'start' => '44221504',
'end' => '44248002',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-007'
),
'ENST00000489710' => array(
'start' => '44221429',
'end' => '44247966',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-008'
),
'ENST00000495828' => array(
'start' => '44284830',
'end' => '44355238',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'ERI3-005'
),
'ENST00000335497' => array(
'start' => '44631732',
'end' => '44649769',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-014'
),
'ENST00000355387' => array(
'start' => '44405194',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-001'
),
'ENST00000361799' => array(
'start' => '44405288',
'end' => '44651723',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-002'
),
'ENST00000372247' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-201'
),
'ENST00000440132' => array(
'start' => '44631732',
'end' => '44649957',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-013'
),
'ENST00000443020' => array(
'start' => '44405288',
'end' => '44651724',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-202'
),
'ENST00000453863' => array(
'start' => '44626326',
'end' => '44636152',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'RNF220-010'
),
'ENST00000470498' => array(
'start' => '44412698',
'end' => '44419872',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-009'
),
'ENST00000471494' => array(
'start' => '44631975',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-012'
),
'ENST00000474064' => array(
'start' => '44631968',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-003'
),
'ENST00000474394' => array(
'start' => '44638296',
'end' => '44650890',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-017'
),
'ENST00000474956' => array(
'start' => '44648308',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-005'
),
'ENST00000475378' => array(
'start' => '44632255',
'end' => '44650808',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-015'
),
'ENST00000480686' => array(
'start' => '44643132',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-004'
),
'ENST00000484745' => array(
'start' => '44632645',
'end' => '44651723',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-006'
),
'ENST00000487332' => array(
'start' => '44408702',
'end' => '44412121',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-007'
),
'ENST00000488865' => array(
'start' => '44631984',
'end' => '44636495',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'RNF220-016'
),
'ENST00000496262' => array(
'start' => '44614265',
'end' => '44627057',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-008'
),
'ENST00000497469' => array(
'start' => '44632235',
'end' => '44645081',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'RNF220-011'
),
'ENST00000362515' => array(
'start' => '44390722',
'end' => '44390823',
'transcript_biotype' => 'snRNA',
'transcript_name' => 'RNU6-369P-201'
),
'ENST00000516337' => array(
'start' => '44333105',
'end' => '44333178',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AL390776.1-201'
),
'ENST00000581357' => array(
'start' => '44545493',
'end' => '44545552',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'MIR5584-201'
),
'ENSMUST00000030439' => array(
'start' => '117271463',
'end' => '117497052',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-001'
),
'ENSMUST00000094853' => array(
'start' => '117271927',
'end' => '117375457',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-002'
),
'ENSMUST00000102690' => array(
'start' => '117271464',
'end' => '117288772',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-006'
),
'ENSMUST00000123222' => array(
'start' => '117490235',
'end' => '117495011',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-007'
),
'ENSMUST00000128122' => array(
'start' => '117277427',
'end' => '117289830',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Rnf220-009'
),
'ENSMUST00000133971' => array(
'start' => '117285379',
'end' => '117289111',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-004'
),
'ENSMUST00000138435' => array(
'start' => '117306058',
'end' => '117496949',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-003'
),
'ENSMUST00000150148' => array(
'start' => '117285889',
'end' => '117300028',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-008'
),
'ENSMUST00000151829' => array(
'start' => '117276519',
'end' => '117285474',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-010'
),
'ENSMUST00000154974' => array(
'start' => '117285092',
'end' => '117289442',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Rnf220-005'
),
'ENSMUST00000037127' => array(
'start' => '117550365',
'end' => '117674297',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-001'
),
'ENSMUST00000125312' => array(
'start' => '117582687',
'end' => '117615582',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-002'
),
'ENSMUST00000134379' => array(
'start' => '117637338',
'end' => '117674281',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-004'
),
'ENSMUST00000134453' => array(
'start' => '117589078',
'end' => '117615241',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-003'
),
'ENSMUST00000144373' => array(
'start' => '117552610',
'end' => '117582717',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Eri3-005'
),
'ENSMUST00000146384' => array(
'start' => '117564758',
'end' => '117674297',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Eri3-006'
),
'ENSMUST00000121841' => array(
'start' => '117513823',
'end' => '117514201',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'Gm12826-001'
),
'ENSMUST00000136115' => array(
'start' => '117445950',
'end' => '117455040',
'transcript_biotype' => 'antisense',
'transcript_name' => 'Gm12828-001'
),
'ENSMUST00000132690' => array(
'start' => '117496452',
'end' => '117500602',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'Gm12827-001'
),
'ENSMUST00000157182' => array(
'start' => '117570134',
'end' => '117570207',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'Gm25559-201'
),
'ENSDART00000086340' => array(
'start' => '32907501',
'end' => '32934615',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-001'
),
'ENSDART00000134651' => array(
'start' => '32770235',
'end' => '32934069',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-006'
),
'ENSDART00000136330' => array(
'start' => '32907476',
'end' => '32918272',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-004'
),
'ENSDART00000139295' => array(
'start' => '32907478',
'end' => '32926397',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-005'
),
'ENSDART00000143879' => array(
'start' => '32907459',
'end' => '32918243',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'rnf220a-002'
),
'ENSDART00000145588' => array(
'start' => '32907457',
'end' => '32912539',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'rnf220a-003'
),
'ENSDART00000154101' => array(
'start' => '32584462',
'end' => '32743920',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-001'
),
'ENSDART00000156961' => array(
'start' => '32584585',
'end' => '32609880',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-003'
),
'ENSDART00000157368' => array(
'start' => '32584522',
'end' => '32634481',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.1-002'
),
'ENSDART00000153813' => array(
'start' => '32755960',
'end' => '32759539',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch211-285i13.2-001'
)
)
$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_0007OR_0001' => array(
'genes_in_region' => array(
'ENSG00000117419' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(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 => 'Colon',
(int) 13 => 'Adrenal',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Liver',
(int) 17 => 'Muscle',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Bladder',
(int) 24 => 'Colon',
(int) 25 => 'Ovary',
(int) 26 => 'Brain',
(int) 27 => 'Kidney',
(int) 28 => 'Ovary',
(int) 29 => 'Brain',
(int) 30 => 'Ovary',
(int) 31 => 'Placenta',
(int) 32 => 'Testis',
(int) 33 => 'Breast',
(int) 34 => 'Lung',
(int) 35 => 'Kidney',
(int) 36 => 'Heart',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Bladder',
(int) 40 => 'Brain',
(int) 41 => 'Muscle',
(int) 42 => 'Lung',
(int) 43 => 'Colon',
(int) 44 => 'Kidney',
(int) 45 => 'Lung',
(int) 46 => 'Ovary',
(int) 47 => 'Placenta',
(int) 48 => 'Liver',
(int) 49 => 'Muscle'
)
),
'CIL_0007OR_0002' => array(
'genes_in_region' => array(
'ENSMUSG00000028677' => array(
[maximum depth reached]
),
'ENSMUSG00000033423' => array(
[maximum depth reached]
),
'ENSMUSG00000083446' => array(
[maximum depth reached]
),
'ENSMUSG00000086876' => array(
[maximum depth reached]
),
'ENSMUSG00000087807' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Brain',
(int) 2 => 'Testis',
(int) 3 => 'Testis',
(int) 4 => 'Adipose',
(int) 5 => 'Adrenal',
(int) 6 => 'Bladder',
(int) 7 => 'Brain',
(int) 8 => 'Breast',
(int) 9 => 'Colon',
(int) 10 => 'Heart',
(int) 11 => 'Kidney',
(int) 12 => 'Liver',
(int) 13 => 'Lung',
(int) 14 => 'Muscle',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Testis',
(int) 21 => 'Testis',
(int) 22 => 'Adipose',
(int) 23 => 'Adrenal',
(int) 24 => 'Bladder',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Placenta',
(int) 35 => 'Testis',
(int) 36 => 'Adrenal',
(int) 37 => 'Breast',
(int) 38 => 'Colon',
(int) 39 => 'Lung',
(int) 40 => 'Ovary',
(int) 41 => 'Adipose',
(int) 42 => 'Breast',
(int) 43 => 'Colon',
(int) 44 => 'Heart',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis',
(int) 50 => 'Adipose',
(int) 51 => 'Brain',
(int) 52 => 'Heart',
(int) 53 => 'Liver',
(int) 54 => 'Ovary',
(int) 55 => 'Placenta',
(int) 56 => 'Testis',
(int) 57 => 'Liver',
(int) 58 => 'Ovary',
(int) 59 => 'Testis'
)
),
'CIL_0007OR_0003' => array(
'genes_in_region' => array(
'ENSDARG00000060929' => array(
[maximum depth reached]
),
'ENSDARG00000097707' => array(
[maximum depth reached]
),
'ENSDARG00000097868' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Muscle',
(int) 5 => 'Brain',
(int) 6 => 'Heart',
(int) 7 => 'Brain',
(int) 8 => 'Heart',
(int) 9 => 'Brain',
(int) 10 => 'Kidney',
(int) 11 => 'Kidney',
(int) 12 => 'Brain',
(int) 13 => 'Muscle'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007OR_0004',
'tax_id' => '7955',
'chromosome' => '8',
'seq_start' => '18840980',
'seq_end' => '18844700',
'region_length' => '3720',
'region_type' => 'UCNEbase',
'el_id' => 'RNF220'
)
)
$gene_el = array(
'ENSDART00000153813' => array(
'Brain' => array(
'average_FPKM' => '0.437',
'stddev_FPKM' => '0.23'
),
'Muscle' => array(
'average_FPKM' => '0.223',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSDARG00000097868'
$is_first = false
$tran_el = array(
'Brain' => array(
'average_FPKM' => '0.437',
'stddev_FPKM' => '0.23'
),
'Muscle' => array(
'average_FPKM' => '0.223',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENSDART00000153813'
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
(ERI3)