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                ),
                E_USER_WARNING
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$value = array(
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)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
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	'path' => '/var/www/c-it-loci/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
I18n::translate() - CORE/Cake/I18n/I18n.php, line 237
__d - CORE/Cake/basics.php, line 617
Cache::write() - CORE/Cake/Cache/Cache.php, line 321
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 219
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Transcript::findByid() - APP/Controller/TranscriptController.php, line 319
TranscriptController::show() - APP/Controller/TranscriptController.php, line 319
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

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                ),
                E_USER_WARNING
            );
$key = 'default_citloci_list'
$value = null
$config = '_cake_model_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/c-it-loci/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 219
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Transcript::findByid() - APP/Controller/TranscriptController.php, line 319
TranscriptController::show() - APP/Controller/TranscriptController.php, line 319
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

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                ),
                E_USER_WARNING
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$key = 'default_citloci_list'
$value = array(
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	(int) 2 => 'diffexp',
	(int) 3 => 'experiment',
	(int) 4 => 'expressed_transcripts',
	(int) 5 => 'external_accessions',
	(int) 6 => 'genes',
	(int) 7 => 'go_annotations',
	(int) 8 => 'homologues',
	(int) 9 => 'maptranscripttoregion',
	(int) 10 => 'organism',
	(int) 11 => 'sample',
	(int) 12 => 'study',
	(int) 13 => 'synonyms',
	(int) 14 => 'transcripts'
)
$config = '_cake_model_'
$settings = array(
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	'engine' => 'File',
	'path' => '/var/www/c-it-loci/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 236
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Transcript::findByid() - APP/Controller/TranscriptController.php, line 319
TranscriptController::show() - APP/Controller/TranscriptController.php, line 319
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

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                ),
                E_USER_WARNING
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$value = null
$config = '_cake_model_'
$settings = array(
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	'engine' => 'File',
	'path' => '/var/www/c-it-loci/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::_cacheDescription() - CORE/Cake/Model/Datasource/DataSource.php, line 310
DataSource::describe() - CORE/Cake/Model/Datasource/DataSource.php, line 135
Mysql::describe() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 332
Model::schema() - CORE/Cake/Model/Model.php, line 1372
DboSource::fields() - CORE/Cake/Model/Datasource/DboSource.php, line 2491
DboSource::read() - CORE/Cake/Model/Datasource/DboSource.php, line 1054
Model::_readDataSource() - CORE/Cake/Model/Model.php, line 2947
Model::find() - CORE/Cake/Model/Model.php, line 2919
DboSource::query() - CORE/Cake/Model/Datasource/DboSource.php, line 597
Model::__call() - CORE/Cake/Model/Model.php, line 808
Transcript::findByid() - APP/Controller/TranscriptController.php, line 319
TranscriptController::show() - APP/Controller/TranscriptController.php, line 319
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165

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                ),
                E_USER_WARNING
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$settings = array(
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	'serialize' => true,
	'duration' => (int) 10,
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Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::_cacheDescription() - CORE/Cake/Model/Datasource/DataSource.php, line 310
Mysql::describe() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 372
Model::schema() - CORE/Cake/Model/Model.php, line 1372
DboSource::fields() - CORE/Cake/Model/Datasource/DboSource.php, line 2491
DboSource::read() - CORE/Cake/Model/Datasource/DboSource.php, line 1054
Model::_readDataSource() - CORE/Cake/Model/Model.php, line 2947
Model::find() - CORE/Cake/Model/Model.php, line 2919
DboSource::query() - CORE/Cake/Model/Datasource/DboSource.php, line 597
Model::__call() - CORE/Cake/Model/Model.php, line 808
Transcript::findByid() - APP/Controller/TranscriptController.php, line 319
TranscriptController::show() - APP/Controller/TranscriptController.php, line 319
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

• HOME
• REGIONS
• GENES
• TRANSCRIPTS
• HELP
• CONTACT

Transcript Info
Description:	brain-derived neurotrophic factor
Transcript Accession	Transcript Name	Contained in Gene	Tax ID	Strand	Position	Biotype
ENST00000438929	BDNF-008	ENSG00000176697	9606	-	11:27654893-27701053	protein_coding

Expression Patterns Heat Map Numeric Values Transcript ID Lung ENST00000438929 0.201±0.00

Conserved Regions
Region ID	Sub-Region	Region Type	Position
CIL_00078E	CIL_00078E_0002	CGP	11:27494576-27722058
CIL_0004RP	CIL_0004RP_0002	CGP	11:27654893-28108308

Gene Ontology
GO ID	Evidence Type	GO Description
GO:0001657	IEA	ureteric bud development
GO:0001662	IEA	behavioral fear response
GO:0001666	IEA	response to hypoxia
GO:0002544	IEA	chronic inflammatory response
GO:0005102	IEA	receptor binding
GO:0005169	IEA	neurotrophin TRKB receptor binding
GO:0005515	IEA	protein binding
GO:0005576	IEA	extracellular region
GO:0005615	IEA	extracellular space
GO:0005737	ISS	cytoplasm
GO:0006120	IEA	mitochondrial electron transport, NADH to ubiquinone
GO:0007214	IEA	gamma-aminobutyric acid signaling pathway
GO:0007399	TAS	nervous system development
GO:0007406	IEA	negative regulation of neuroblast proliferation
GO:0007411	IEA	axon guidance
GO:0007412	IEA	axon target recognition
GO:0007611	IEA	learning or memory
GO:0007612	IEA	learning
GO:0007623	IEA	circadian rhythm
GO:0007631	IEA	feeding behavior
GO:0008021	IEA	synaptic vesicle
GO:0008038	IEA	neuron recognition
GO:0008083	IEA	growth factor activity
GO:0009416	IEA	response to light stimulus
GO:0009642	IEA	response to light intensity
GO:0009725	IEA	response to hormone
GO:0010996	IEA	response to auditory stimulus
GO:0014047	IEA	glutamate secretion
GO:0014076	IEA	response to fluoxetine
GO:0014823	IEA	response to activity
GO:0016023	IEA	cytoplasmic membrane-bounded vesicle
GO:0016358	IEA	dendrite development
GO:0019222	IEA	regulation of metabolic process
GO:0021675	IEA	nerve development
GO:0030061	IEA	mitochondrial crista
GO:0030424	IEA	axon
GO:0030425	IEA	dendrite
GO:0030516	IEA	regulation of axon extension
GO:0031667	IEA	response to nutrient levels
GO:0032094	IEA	response to food
GO:0032229	IEA	negative regulation of synaptic transmission, GABAergic
GO:0033138	IEA	positive regulation of peptidyl-serine phosphorylation
GO:0033189	IEA	response to vitamin A
GO:0034612	IEA	response to tumor necrosis factor
GO:0035864	IEA	response to potassium ion
GO:0042490	IEA	mechanoreceptor differentiation
GO:0042493	IEA	response to drug
GO:0042596	IEA	fear response
GO:0043025	IEA	neuronal cell body
GO:0043066	IEA	negative regulation of apoptotic process
GO:0043195	IEA	terminal bouton
GO:0043204	IEA	perikaryon
GO:0043523	IEA	regulation of neuron apoptotic process
GO:0043524	IEA	negative regulation of neuron apoptotic process
GO:0045666	IEA	positive regulation of neuron differentiation
GO:0045843	IEA	negative regulation of striated muscle tissue development
GO:0046668	IEA	regulation of retinal cell programmed cell death
GO:0048167	IEA	regulation of synaptic plasticity
GO:0048169	IEA	regulation of long-term neuronal synaptic plasticity
GO:0048170	IEA	positive regulation of long-term neuronal synaptic plasticity
GO:0048172	IEA	regulation of short-term neuronal synaptic plasticity
GO:0048471	ISS	perinuclear region of cytoplasm
GO:0048675	IEA	axon extension
GO:0048839	IEA	inner ear development
GO:0050890	IEA	cognition
GO:0051602	IEA	response to electrical stimulus
GO:0051965	IDA	positive regulation of synapse assembly
GO:0055093	IEA	response to hyperoxia
GO:0060079	IEA	regulation of excitatory postsynaptic membrane potential
GO:0060548	IEA	negative regulation of cell death
GO:0061193	IEA	taste bud development
GO:0071356	IEA	cellular response to tumor necrosis factor
GO:0071874	IEA	cellular response to norepinephrine stimulus
GO:0072347	IEA	response to anesthetic
GO:0097484	IEA	dendrite extension
GO:1901215	IEA	negative regulation of neuron death
GO:1902065	IEA	response to L-glutamate
GO:1990089	IEA	response to nerve growth factor
GO:1990090	IEA	cellular response to nerve growth factor stimulus
GO:1990138	IEA	neuron projection extension

Homologs
ENSEMBL Accession	Gene Name	Biotype	Species	E-Value	Bit Score
ENSMUST00000111042	Bdnf-010	protein_coding	Mus_musculus	0	2353
ENSMUST00000111044	Bdnf-008	protein_coding	Mus_musculus	0	2121
ENSMUST00000111050	Bdnf-006	protein_coding	Mus_musculus	0	2082
ENSMUST00000176893	Bdnf-011	protein_coding	Mus_musculus	0	2080
ENSMUST00000111049	Bdnf-004	protein_coding	Mus_musculus	0	2080
ENSMUST00000111051	Bdnf-002	protein_coding	Mus_musculus	0	2080
ENSMUST00000111045	Bdnf-007	protein_coding	Mus_musculus	0	2078
ENSMUST00000111046	Bdnf-005	protein_coding	Mus_musculus	0	2078
ENSMUST00000111047	Bdnf-003	protein_coding	Mus_musculus	0	2076
ENSMUST00000053317	Bdnf-001	protein_coding	Mus_musculus	0	2076
ENSMUST00000111043	Bdnf-009	protein_coding	Mus_musculus	0	2074
ENSDART00000131009	bdnf-005	protein_coding	Danio_rerio	0	479
ENSDART00000014843	bdnf-001	protein_coding	Danio_rerio	0	479

Loading

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	'Helper' => '/var/www/c-it-loci/lib/Cake/View/Helper.php',
	'FormHelper' => '/var/www/c-it-loci/lib/Cake/View/Helper/FormHelper.php',
	'SessionHelper' => '/var/www/c-it-loci/lib/Cake/View/Helper/SessionHelper.php'
)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/c-it-loci/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
App::shutdown() - CORE/Cake/Core/App.php, line 899
[main] - [internal], line ??

Warning (512): _cake_core_ cache was unable to write 'method_cache' to File cache [CORE/Cake/Cache/Cache.php, line 323]
Code Context
                ),
                E_USER_WARNING
            );
$key = 'method_cache'
$value = array(
	(int) 0 => false,
	'name' => array(
		'45b989c52610ac6d773f6b83d6108190' => '`citloci`',
		'f2816a5be27cbf774db1203e73495133' => '`transcripts`',
		'8165bd022016cf07bb0216f629424d65' => '`Transcript`.`id`',
		'e10a6371e6735b1981cc85600524b7ca' => '`Transcript`.`fk_gene_id`',
		'b3b5e1885e4cd068e6b338099d5729b9' => '`Transcript`.`transcript_version`',
		'7ffab25e377d3a7b93369d36dd072d54' => '`Transcript`.`tax_id`',
		'f5e763ac38b6f19fb2aec706ca43efcd' => '`Transcript`.`assembly`',
		'9b1c568cf65fba8e7e2de6dc1b67b3f9' => '`Transcript`.`chromosome`',
		'6e01bbef387a58c2ce7c4c3844dc88c0' => '`Transcript`.`strand`',
		'60b04f112f50bbdce828cbef65efa0b9' => '`Transcript`.`start`',
		'f1cac05c79ebe8dd755656a25ec597a7' => '`Transcript`.`end`',
		'cb77e27a33acde1f1d541f16aa9c2a8e' => '`Transcript`.`transcript_name`',
		'4c7958e621b5890aa3788835d12d3c8c' => '`Transcript`.`transcript_source`',
		'a99f810917ca747fa263ac35165d3bbd' => '`Transcript`.`transcript_biotype`',
		'85718a755d73a123c8cbafa875fd8c34' => '`Transcript`.`annotation_version`',
		'8c6497837140572ea11ac9f79b9f25eb' => '`Transcript`'
	),
	'fields' => array(
		'6eb0704ca7a9dc21eedf21112fe58d42' => array(
			(int) 0 => '`Transcript`.`id`',
			(int) 1 => '`Transcript`.`fk_gene_id`',
			(int) 2 => '`Transcript`.`transcript_version`',
			(int) 3 => '`Transcript`.`tax_id`',
			(int) 4 => '`Transcript`.`assembly`',
			(int) 5 => '`Transcript`.`chromosome`',
			(int) 6 => '`Transcript`.`strand`',
			(int) 7 => '`Transcript`.`start`',
			(int) 8 => '`Transcript`.`end`',
			(int) 9 => '`Transcript`.`transcript_name`',
			(int) 10 => '`Transcript`.`transcript_source`',
			(int) 11 => '`Transcript`.`transcript_biotype`',
			(int) 12 => '`Transcript`.`annotation_version`'
		)
	)
)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/c-it-loci/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DboSource::__destruct() - CORE/Cake/Model/Datasource/DboSource.php, line 3539
[main] - [internal], line ??