EMAGE mouse gene expression spatial database

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EMAGE:15661

Slc10a4 solute carrier family 10 (sodium/bile acid cotransporter family), member 4 ( MGI:3606480)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010865. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010865_01	euxassay_010865_02	euxassay_010865_03	euxassay_010865_04

euxassay_010865_05	euxassay_010865_06	euxassay_010865_07	euxassay_010865_08	euxassay_010865_09

euxassay_010865_10	euxassay_010865_11	euxassay_010865_12	euxassay_010865_13	euxassay_010865_14

euxassay_010865_15	euxassay_010865_16	euxassay_010865_17	euxassay_010865_18	euxassay_010865_19

euxassay_010865_20	euxassay_010865_21	euxassay_010865_22

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:

15661_wholemount_strong.wlz

15661_wholemount_moderate.wlz

15661_wholemount_weak.wlz

15661_wholemount_possible.wlz

15661_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:15661_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

diencephalon lateral wall mantle layer

strong

single cell

strong expression: see section 08 10 11 12 13 14 15 16

telencephalon mantle layer

strong

single cell

strong expression: see section 06 07 08 09 10 11 12 13 18 19 20 21 22 moderate expression: see section 14 15 16 17

medulla oblongata basal plate mantle layer

strong

single cell

strong expression: see section 06 07 08 09 10 11 12 13 14 15 moderate expression: see section 05

pons mantle layer

strong

single cell

strong expression: see section 06 07 10 11 15 16 17 moderate expression: see section 05

midbrain mantle layer

strong

single cell

strong expression: see section 09 10 11 12 13 14

trigeminal v nerve

moderate

regional

moderate expression: see section 09 10 16

ventral grey horn

strong

regional

strong expression: see section 06 07 08 09 10 11 12 13

cervico-thoracic ganglion

moderate

single cell

moderate expression: see section 12 weak expression: see section 06

cervical ganglion

weak

single cell

weak expression: see section 05 06 14 15

thoracic ganglion

weak

single cell

weak expression: see section 10 11

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T38333
Entity Detected:	Slc10a4, solute carrier family 10 (sodium/bile acid cotransporter family), member 4 ( MGI:3606480)
Sequence:	sense strand is shown >T38333 CTGTACTCCTATGTGGCTGCTGTCCTGGTGGAAATCTCTCCAATCTCATGTCCCTGCTGGTAGACGGCGA CATGAACCTCAGCATCATCATGACCATTTCCTCCACACTCCTGGCCCTGGTGTTGATGCCCCTCTGCCTC TGGATCTACAGCCGTGCCTGGATCAATACCCCTCTGGTGCAATTGCTCCCCCTAGGGGCAGTCACCCTGA CTCTCTGCAGCACTCTCATTCCTATTGGGCTAGGCGTCTTCATTCGCTACAAATACAACCGCGTGGCTGA CTACATCGTGAAGGTTTCCCTGTGGTCTCTGCTTGTGACCCTGGTGGTTCTTTTCATAATGACTGGCACC ATGCTGGGACCTGAACTGCTGGCAAGCATTCCCGCAACTGTTTACGTGGTCGCCATTTTTATGCCTCTGG CGGGCTACGCCTCGGGTTATGGCTTAGCTACCCTCTTCCACCTCCCGCCCAACTGCAAGCGGACTGTGTG TCTGGAAACAGGAAGTCAGAACGTGCAGCTCTGCACTGCGATTCTCAAACTGGCCTTCCCGCCTCGCTTT ATAGGTAGCATGTACATGTTCCCTCTGCTCTACGCCCTCTTCCAGTCTGCCGAGGCAGGGGTCTTCGTGT TGATCTACAAAATGTACGGAAGTGAGATACTGCACAAGCGAGAGGC
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 105187. Forward Primer - name:105187_F_cDNA_E130304D01, sequence:CTGTACTCCTATGTGGCTGCTG; Reverse Primer - name:105187_N_SP6_cDNA_E130304D01, sequence:GCCTCTCGCTTGTGCAGTATC. 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:15658 same embryo
	EMAGE:15657 same embryo
	EMAGE:15660 same embryo
	EMAGE:15659 same embryo
	EMAGE:15656 same embryo
	EurExpress:euxassay_010865 same experiment
	MGI:4828092 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