EMAGE mouse gene expression spatial database

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EMAGE:20036

Slc9a6 solute carrier family 9 (sodium/hydrogen exchanger), member 6 ( MGI:2443511)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_012153. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_012153_01	euxassay_012153_02	euxassay_012153_04	euxassay_012153_05

euxassay_012153_06	euxassay_012153_07	euxassay_012153_08	euxassay_012153_09	euxassay_012153_10

euxassay_012153_11	euxassay_012153_12	euxassay_012153_13	euxassay_012153_14	euxassay_012153_15

euxassay_012153_16	euxassay_012153_17	euxassay_012153_18	euxassay_012153_19	euxassay_012153_20

euxassay_012153_21	euxassay_012153_22	euxassay_012153_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:

20036_wholemount_strong.wlz

20036_wholemount_moderate.wlz

20036_wholemount_weak.wlz

20036_wholemount_possible.wlz

20036_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20036_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

brain

moderate

regional

moderate expression: see section 08 16 17 18 weak expression: see section 01 02 03 04 05 06 07 09 10 11 12 13 14 15 19 20 21 22 23

facial vii ganglion

moderate

regional

moderate expression: see section 04 18 19 20 21

glossopharyngeal ix ganglion

moderate

regional

moderate expression: see section 18

trigeminal v ganglion

moderate

regional

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

vagus x ganglion

moderate

regional

moderate expression: see section 17

spinal cord

moderate

regional

moderate expression: see section 16 17 weak expression: see section 09 10 11 12 13 14 15

dorsal root ganglion

weak

regional

weak expression: see section 09 10 11 12 17 18

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T37048
Entity Detected:	Slc9a6, solute carrier family 9 (sodium/hydrogen exchanger), member 6 ( MGI:2443511)
Sequence:	sense strand is shown >T37048 TGAAGTGCAGTCAAGTCCAACTACCTTGTTGGTCAACGTCAGTGGAAAATTTTATGAGTATACGCTGAAA GGAGAGATTAGCTCACATGAACTCAACAATGTTCAAGATAATGAAATGCTTAGGAAGGTTACTTTTGATC CAGAAGTCTTTTTCAACATACTGCTTCCTCCTATCATATTTTATGCAGGGTACAGTCTCAAAAGGAGACA TTTCTTCCGGAACCTTGGGTCTATCTTAGCATATGCCTTTCTTGGAACAGCAATTTCTTGTTTCGTTATT GGGTCCATCATGTATGGCTGTGTAACCCTGATGAAGGTGACCGGGCAGCTCGCGGGAGATTTTTACTTTA CAGATTGCTTGCTGTTTGGTGCCATTGTTTCAGCCACCGACCCAGTGACTGTTCTTGCCATCTTCCATGA GCTTCAAGTTGACGTTGAACTCTACGCTCTTCTCTTCGGGGAAAGTGTCCTCAATGACGCGGTTGCCATA GTGCTGTCCTCCTCAATAGTGGCATACCAGCCAGCGGGAGACAACAGCCACACCTTTGACGTTACAGCCA TGTTCAAATCTATTGGAATCTTCCTTGGGATCTTCAGTGGATCTTTTGCAATGGGTGCTGCAACAGGCGT GGTAACAGCTTTAGTGACAAAGTTCACAAAGCTGAGAGAGTTCCAGCTGTTGGAGACAGGCCTTTTCTTC TTGATGTCCTGGAGCACCTTTCTTCTGGCTGAAGCAT
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 93309. Forward Primer - name:093309_F_cDNA_Slc9a6, sequence:TGAAGTGCAGTCAAGTCCAACT; Reverse Primer - name:093309_N_SP6_cDNA_Slc9a6, sequence:ATGCTTCAGCCAGAAGAAAGG. 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:20033 same embryo
	EMAGE:20035 same embryo
	EMAGE:20034 same embryo
	EurExpress:euxassay_012153 same experiment
	MGI:4828290 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