EMAGE mouse gene expression spatial database

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EMAGE:15789

Slc4a5 solute carrier family 4, sodium bicarbonate cotransporter, member 5 ( MGI:2443220)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_013237. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_013237_01	euxassay_013237_02	euxassay_013237_03	euxassay_013237_04

euxassay_013237_05	euxassay_013237_06	euxassay_013237_07	euxassay_013237_08	euxassay_013237_09

euxassay_013237_10	euxassay_013237_11	euxassay_013237_12	euxassay_013237_13	euxassay_013237_14

euxassay_013237_15	euxassay_013237_16	euxassay_013237_17	euxassay_013237_18	euxassay_013237_19

euxassay_013237_20	euxassay_013237_21	euxassay_013237_22	euxassay_013237_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:

15789_wholemount_strong.wlz

15789_wholemount_moderate.wlz

15789_wholemount_weak.wlz

15789_wholemount_possible.wlz

15789_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:15789_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

lateral ventricle choroid plexus

strong

regional

strong expression: see section 07 moderate expression: see section 08 09 10 11 12 13 18 19 20 weak expression: see section 16 17

metencephalon part of 4th ventricle choroid plexus

strong

regional

strong expression: see section 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T39849
Entity Detected:	Slc4a5, solute carrier family 4, sodium bicarbonate cotransporter, member 5 ( MGI:2443220)
Sequence:	sense strand is shown >T39849 CCCTCATGGTGGATGATCTATTCAGCGATGTGGCTTATAAAGCTCGGAACCGAGAAGATCTGATCGCAGG GATTGATGAATTTCTAGACGAGGTCATTGTCCTTCCCCCTGGAGAGTGGGACCCAAACATCAGAATTGAG CCACCCAAGAAAGTTCCCTCAGCTGACAAGAGGAAATCTGTGTTCTCTCTGGCAGAGCCGGGCCAGATGA ATGGCTCTGTGGGCGGAGGCGGAGCCTCGGCTGGAGGAGGCGGCAGTGGCGGAGGGGCTGGAGGCAGCGG GGCTGGCGGAGTGGGCAGTGGCGACGAAGCTGAGATGCCAGCTATGCACGAAATCGGGGAGGAGCTGATC TGGACCGGAAGGTTCTTTGGAGGACTGTGTCTGGATGTCAAGAGGAAGCTGCCCTGGTTCCCAAGCGACT TCTATGATGGCTTCCACCTCCAGTCCATCTCTGCTGTTCTGTTCATCTACCTCGGCTGTATTACCAACGC GATCACCTTTGGTGGGCTTCTGGGGGATGCCACAGACAACTACCAGGGAGTAATGGAGAGCTTCCTGGGC ACTGCCATGGCTGGCAGCTTGTTCTGCCTCTTCTC
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 108022. Forward Primer - name:108022_F_cDNA_LOC381788, sequence:CCCTCATGGTGGATGATCTATT; Reverse Primer - name:108022_N_SP6_cDNA_LOC381788, sequence:GAGAAGAGGCAGAACAAGCTG. 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:15793 same embryo
	EMAGE:15788 same embryo
	EMAGE:15790 same embryo
	EMAGE:15791 same embryo
	EMAGE:15792 same embryo
	EurExpress:euxassay_013237 same experiment
	MGI:4828246 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