EMAGE mouse gene expression spatial database

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EMAGE:8325

Ntrk1 neurotrophic tyrosine kinase, receptor, type 1 ( MGI:97383)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_007632. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_007632_01	euxassay_007632_02	euxassay_007632_03	euxassay_007632_04

euxassay_007632_05	euxassay_007632_06	euxassay_007632_07	euxassay_007632_08	euxassay_007632_09

euxassay_007632_10	euxassay_007632_11	euxassay_007632_12	euxassay_007632_13	euxassay_007632_14

euxassay_007632_15	euxassay_007632_16	euxassay_007632_17	euxassay_007632_18	euxassay_007632_19

euxassay_007632_20	euxassay_007632_21	euxassay_007632_22	euxassay_007632_23

View assay images:
Expression pattern clarity:
Find spatially similar wholemount expression patterns:

Expression Pattern Description

Spatial Annotation:

Annotation colour key:

	strong
	moderate
	weak
	possible
	not detected

wholemount mapping

Download individual expression domains:

8325_wholemount_strong.wlz

8325_wholemount_moderate.wlz

8325_wholemount_weak.wlz

8325_wholemount_possible.wlz

8325_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:8325_all_domains.zip

Find spatially similar wholemount expression patterns:

EMAGE spatially similar wholemount patterns

Morphological match to the template:

Text Annotation:

Structure

Level

Pattern

Notes

corpus striatum

moderate

single cell

moderate expression: see section 04 05 06 07 08 09 10 13 14 15 16 17 18 19 20

medulla oblongata basal plate mantle layer

moderate

single cell

moderate expression: see section 13 14

rest of cerebellum mantle layer

moderate

single cell

moderate expression: see section 09 10 11 15 16 17 weak expression: see section 18 19

pons mantle layer

moderate

single cell

moderate expression: see section 11 15 weak expression: see section 16

midbrain mantle layer

moderate

single cell

moderate expression: see section 10 11 12 13 14 15 16 17 18 19 20

glossopharyngeal ix ganglion

strong

regional

strong expression: see section 07 08 18 19

trigeminal v ganglion

strong

regional

strong expression: see section 03 04 05 06 07 08 16 17 18 19 20 21 22

vagus x ganglion

moderate

regional

moderate expression: see section 08 17

vestibulocochlear viii ganglion

strong

regional

strong expression: see section 07

cervico-thoracic ganglion

moderate

regional

moderate expression: see section 09 15

cervical ganglion

moderate

regional

moderate expression: see section 09 16

thoracic ganglion

weak

regional

weak expression: see section 12 13

dorsal root ganglion

strong

regional

strong expression: see section 08 09 10 11 12 15 16 17 18 19

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T36709
Entity Detected:	Ntrk1, neurotrophic tyrosine kinase, receptor, type 1 ( MGI:97383)
Sequence:	sense strand is shown >T36709 TGTACCCACAGTGAAGATCCAGATGCCCAATGACTCTGTGGAAGTGGGCGATGACGTGTTTCTGCAGTGC CAGGTGGAGGGGCTGGCCCTACAGCAGGCTGACTGGATCCTCACAGAGCTGGAAGGGGCAGCCACCGTGA AGAAATTTGGAGATCTGCCATCCCTGGGGCTGATTCTGGTCAATGTCACCAGTGATCTCAACAAGAAGAA TGTGACGTGCTGGGCAGAGAATGATGTGGGCCGGGCCGAGGTCTCTGTCCAAGTCAGCGTCTCCTTCCCA GCCAGTGTGCACCTGGGCCTAGCGGTGGAGCAGCATCATTGGTGCATCCCCTTCTCGGTGGACGGGCAGC CAGCACCGTCTCTGCGCTGGTTGTTCAACGGCTCTGTGCTCAACGAGACCAGTTTCATCTTCACTCAGTT CTTGGAGTCTGCGCTGACTAATGAGACCATGCGGCACGGCTGCCTGCGCCTCAATCAGCCCACGCATGTC AACAACGGGAACTACACCCTGCTGGCGGCCAACCCCTACGGCCAGGCTGCCGCCTCCGTCATGGCTGCTT TTATGGACAACCCTTTTGAGTTCAACCCTGAGGACCCCATCCCTGTCTCCTTCTCGCCAGTGGACGGTAA CAGCACATCAAGAGACCCAGTGGAGAAGAAAGATGAAACCCCTTTTGGGGTCTCTGTGGCTGTGGGCCTA GCCGTCTCTGCCGCCCTCTTCCTTTCTGCCCTCCTTCTTGTGCTCAACAAATGTGGACAGAGGAGCAAAT TTGGGATCAACCGCCCTGCTGTATTAGCTCCAGAGGATGGGCT
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from wild type C57BL/6J mouse whole brain cDNA), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 77307. Forward Primer - name:077307_F_cDNA_Ntrk1, sequence:TGTACCCACAGTGAAGATCCAG; Reverse Primer - name:077307_N_SP6_cDNA_Ntrk1, sequence:AGCCCATCCTCTGGAGCTAAT. The reverse primer contains a 5' extension containing an Sp6 RNA polymerase binding site (this extension is not shown in the primer sequence listed here). Anti-sense probe was transcribed from the PCR amplified template using Sp6 polymerase.
Chemistry:	RNA
Strand:	antisense
Label:	digoxigenin

Specimen

Organism:	mouse
Strain:	C57BL/6
Age:	14.5 dpc
Theiler Stage:	TS23
Mutations:	none (wild-type)
Preparation:	section

Procedures

Fixation:	none
Embedding:	cryosection (OCT)
Staining procedure:	alkaline phosphatase + NBT/BCIP

General Information

Authors:	Dr. Graciana Diez-Roux, Prof. Gregor Eichele, Prof. Richard Baldock, Dr. Duncan Davidson, Prof. Stylianos Antonarakis, Dr. Marie Laure Yaspo, Prof. Salvador Martinez Perez, Dr. Pascal Dolle, Dr. David Tannahill, Prof. Pier Paolo Di Fiore, Mr. Stefan Kruse, Mr. Paolo Sarmientos, Dr. Uwe Radelof, Prof. Andrea Ballabio.
Principal investigator:	Professor Andrea Ballabio, Fondazione Telethon, TIGEM Instituto di Genetica e Medicina, Via Pietro Castellino 111 80131, Napoli, Italy 80131
Submitted by:	EMAGE EDITOR, Institute of Genetics and Molecular Medicine, Western General Hospital, Crewe Road, Edinburgh, UK EH4 2XU
Experiment type:	screen
References:	[ doi:10.1371/journal.pbio.1000582] [ PMID:21267068] Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, et al 2011 A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo PLoS Biol (9)
Links:	EMAGE:8330 same embryo
	EMAGE:8326 same embryo
	EMAGE:8329 same embryo
	EMAGE:8328 same embryo
	EMAGE:8327 same embryo
	EurExpress:euxassay_007632 same experiment
	MGI:4826820 same experiment
	Ensembl same gene
	Allen Brain Atlas same gene
	BioGPS same gene
	International Mouse Knockout Project Status same gene
	GEISHA Chicken ISH Database same gene
	EMBL-EBI Gene Expression Atlas same gene
	BrainStars same gene
	ViBrism same gene
Data Source