EMAGE mouse gene expression spatial database

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EMAGE:21316

Clcn7 chloride channel 7 ( MGI:1347048)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000137. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000137_01	euxassay_000137_02	euxassay_000137_03	euxassay_000137_04

euxassay_000137_05	euxassay_000137_06	euxassay_000137_07	euxassay_000137_08	euxassay_000137_09

euxassay_000137_10	euxassay_000137_11	euxassay_000137_12	euxassay_000137_13	euxassay_000137_14

euxassay_000137_15	euxassay_000137_16	euxassay_000137_17	euxassay_000137_18	euxassay_000137_19

euxassay_000137_20	euxassay_000137_21	euxassay_000137_22	euxassay_000137_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:

21316_wholemount_strong.wlz

21316_wholemount_moderate.wlz

21316_wholemount_weak.wlz

21316_wholemount_possible.wlz

21316_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:21316_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

pericardium

moderate

single cell

moderate expression: see section 1

submandibular gland primordium

strong

regional

strong expression: see section 9 moderate expression: see section 6 7 8 0 weak expression: see section 9

vibrissa

strong

spotted

strong expression: see section 9 0 moderate expression: see section 4 6

cerebral cortex marginal layer

strong

homogeneous

strong expression: see section 1 5 7 8 9 0 moderate expression: see section 9 0 4 6 weak expression: see section 8

olfactory cortex marginal layer

moderate

homogeneous

moderate expression: see section 4 6

midbrain marginal layer

strong

homogeneous

strong expression: see section 3 4 5 8 9 0 moderate expression: see section 6

facial vii ganglion

moderate

homogeneous

moderate expression: see section 8

glossopharyngeal ix ganglion

strong

homogeneous

strong expression: see section 7 9 moderate expression: see section 8 9

trigeminal v ganglion

strong

homogeneous

strong expression: see section 2 7 7 8 9 0 moderate expression: see section 3 5 6 8 9 3

vagus x ganglion

strong

homogeneous

strong expression: see section 7 8 9 0 moderate expression: see section 3 5 6 8 9 3

vestibulocochlear viii ganglion

strong

homogeneous

strong expression: see section 7 9 0 moderate expression: see section 3 5 9

spinal cord

strong

regional

strong expression: see section 4 moderate expression: see section 6 weak expression: see section 2

dorsal root ganglion

strong

homogeneous

strong expression: see section 0 1 6 7 8 9 moderate expression: see section 9

retina

moderate

regional

moderate expression: see section 1 3

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T1685
Entity Detected:	Clcn7, chloride channel 7 ( MGI:1347048)
Sequence:	sense strand is shown >T1685 TGGCCTCGAGCCAGAATTCGGACGAGGCTGAATTCATGAACCCTTCTCCCTACACTGTGCCTCAGGAGGC ATCTCTTCCTCGAGTGTTCAAGCTCTTCCGGGCTCTGGGCCTGAGGCACCTGGTAGTAGTAGACAACCAC AATCAGGTGGTCGGGCTGGTGACCAGGAAGGACCTAGCAAGATACCGCCTAGGAAAGGGAGGCCTAGAAG AGCTTTCGCTGGCCCAGACGTGAGGGCTGGCCCCCCAGCCTTGGACAGCAGTACCCCAGCCCCTCTGCAC CTCCTCCCAGGGTCCCTGATCTCAGCCAAAGCCTTGCCCCCTAGGCAGTGCAGCAACAGGAGCAAATGCC CTCCCTAGGCTTGGCTGGTGTGGGGGCCAGACCCTTTGTCCTGGGCAGTTGGTTTCAGTCATCAGCACTT TCCCTATTCCCTGACCCTCCAGGCCTCAGACTTGCCCCACTCCTGGTTCCTTCTCCCAGGATGAAGTGTG TGTTATCACACCCCTTGTGGCTCACTTCTGAGAGCCAATAGAGTGTGTGTGAGAAAGACAGACGTGAGCT ACTACT
Notes:	The probe template was PCR amplified from IMAGE:475808 using vector specific primers. Forward Primer - name:RZPD M13 forward, sequence:GCTATTACGCCAGCTGGCGAAAGGGGGATGTG; Reverse Primer - name:RZPD M13 reverse, sequence:CCCCAGGCTTTACACTTTATGCTTCCGGCTCG. Anti-sense probe was then transcribed from the PCR amplified template using T3 polymerase. EMAGE Editor's Note: the partial probe sequence indicated here was given by the EURExpress Consortium and has been checked using BLAST comparison against all available partial insert sequences of IMAGE:475808 from NCBI. In cases where no BLAST hit was found (because the two sequence reads are found at opposing ends of the insert sequence), both end sequences were then checked against the appropriate cDNA RefSeq to ensure validity of the information.
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:	EurExpress:euxassay_000137 same experiment
	EMAGE:21317 same embryo
	EMAGE:21318 same embryo
	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