EMAGE mouse gene expression spatial database

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EMAGE:12084

Chrna5 cholinergic receptor, nicotinic, alpha polypeptide 5 ( MGI:87889)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_008363. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_008363_01	euxassay_008363_02	euxassay_008363_03	euxassay_008363_04

euxassay_008363_05	euxassay_008363_06	euxassay_008363_07	euxassay_008363_08	euxassay_008363_09

euxassay_008363_10	euxassay_008363_11	euxassay_008363_12	euxassay_008363_13	euxassay_008363_14

euxassay_008363_15	euxassay_008363_16	euxassay_008363_17	euxassay_008363_18	euxassay_008363_19

euxassay_008363_20	euxassay_008363_21	euxassay_008363_22	euxassay_008363_23	euxassay_008363_24

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:

12084_wholemount_strong.wlz

12084_wholemount_moderate.wlz

12084_wholemount_weak.wlz

12084_wholemount_possible.wlz

12084_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12084_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

rest of cerebellum mantle layer

strong

single cell

strong expression: see section 09 10 13 14 15 moderate expression: see section 02 05 06 07 08 16 17 weak expression: see section 03 04 18 21 22 23

rest of cerebellum ventricular layer

strong

single cell

strong expression: see section 09 10 11 moderate expression: see section 12 16 17 weak expression: see section 18

pons mantle layer

strong

single cell

strong expression: see section 09 10 11 12 13 14 moderate expression: see section 16 17 weak expression: see section 07 08

midbrain mantle layer

moderate

single cell

moderate expression: see section 06 07 08 09 10 11 16 17 weak expression: see section 18 19

vagus x ganglion

moderate

single cell

moderate expression: see section 09 17 18 weak expression: see section 08

trigeminal v nerve

moderate

single cell

moderate expression: see section 18 weak expression: see section 10 11

pharynx

weak

regional

weak expression: see section 08

stomach

moderate

regional

moderate expression: see section 06 07 09 10 11 weak expression: see section 04 05

hindgut

weak

regional

weak expression: see section 13 14 15 17 18

midgut

moderate

regional

moderate expression: see section 09 10 11 weak expression: see section 08 12 13 14 15 17 18 19

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T35141
Entity Detected:	Chrna5, cholinergic receptor, nicotinic, alpha polypeptide 5 ( MGI:87889)
Sequence:	sense strand is shown >T35141 CTCTGCTGCAAAACATGAAGACAGTTTGTTTAGGGATTTATTTGAAGACTATGAAAAGTGGGTTCGTCCT GTGGAACACCTGAGTGACAAGATAAAAATCAAGTTTGGCCTTGCAATATCTCAGTTAGTGGACGTGGATG AGAAAAACCAGCTAATGACCACCAACGTCTGGTTGAAGCAGGAATGGATAGATGTAAAGTTAAGATGGAA TCCTGATGACTATGGTGGAATAAAAATTATACGTGTTCCTTCAGACTCTCTGTGGATCCCAGACATCGTT TTGTTTGATAATGCAGACGGACGTTTCGAAGGGGCCAGTACGAAAACAGTTGTCAGGTACAATGGCACTG TCACTTGGACGCAGCCAGCAAACTACAAAAGTTCTTGCACTATAGATGTGACCTTTTTCCCATTTGATCT CCAAAATTGCTCCATGAAATTCGGCTCATGGACGTATGATGGATCCCAGGTCGATATAATCCTAGAGGAC CAAGATGTCGACAGAACAGACTTTTTTGACAATGGAGAATGGGAAATCATGAGCGCAATGGGGAGCAAGG GGAACCGGACGGACAGCTGCTGCTGGTACCCCTGCATCACCTACTCCTTCGTGATCAAACGGCTGCCTCT CTTCTACACCCTGTTTCTTATCATACCCTGCATCGGGCTCTCGTTTCTGACTGTGGTTGTCTTCTATCTC CCTTCAAACGAAGGTGAAAAGATTAGCCTGTGCACTTCCGTGCTGGTCTCTCTGACTGTCTTCCTGCTGG TGATTGAGGAAATTATACCGTCATCTTCCAAAGTCATACCTCTGATCGGGGAGTACTTGGTGTTCACCAT GATCTTCGTGACCCTATCCA
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 73202. Forward Primer - name:073202_F_cDNA_Chrna5, sequence:CTCTGCTGCAAAACATGAAGAC; Reverse Primer - name:073202_N_SP6_cDNA_Chrna5, sequence:TGGATAGGGTCACGAAGATCA. 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:12086 same embryo
	EMAGE:12083 same embryo
	EMAGE:12085 same embryo
	EMAGE:12082 same embryo
	EMAGE:12087 same embryo
	EurExpress:euxassay_008363 same experiment
	MGI:4823857 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