EMAGE mouse gene expression spatial database

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EMAGE:13517

Slc6a4 solute carrier family 6 (neurotransmitter transporter, serotonin), member 4 ( MGI:96285)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_019733. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_019733_01	euxassay_019733_02	euxassay_019733_03	euxassay_019733_04

euxassay_019733_05	euxassay_019733_06	euxassay_019733_07	euxassay_019733_08	euxassay_019733_09

euxassay_019733_10	euxassay_019733_11	euxassay_019733_12	euxassay_019733_13	euxassay_019733_14

euxassay_019733_15	euxassay_019733_16	euxassay_019733_17	euxassay_019733_18	euxassay_019733_19

euxassay_019733_20	euxassay_019733_21	euxassay_019733_22	euxassay_019733_23	euxassay_019733_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:

13517_wholemount_strong.wlz

13517_wholemount_moderate.wlz

13517_wholemount_weak.wlz

13517_wholemount_possible.wlz

13517_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:13517_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

medulla oblongata basal plate mantle layer

strong

spotted

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

pons mantle layer

strong

spotted

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

midbrain mantle layer

strong

spotted

strong expression: see section 11 12 14 15

liver lobe

strong

spotted

strong expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 14 15 16 17 18 19 20 21 22 23 24

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T56056
Entity Detected:	Slc6a4, solute carrier family 6 (neurotransmitter transporter, serotonin), member 4 ( MGI:96285)
Sequence:	sense strand is shown >T56056 AACTACTTCGCCCAGGACAACATCACCTGGACACTCCATTCCACGTCACCTGCTGAGGAGTTTTACTTGC GCCATGTCCTGCAGATCCATCAGTCAAAGGGACTCCAGGACCTGGGGACCATCAGCTGGCAGCTGGCTCT CTGCATCATGCTCATCTTCACCATTATCTACTTCAGCATCTGGAAAGGAGTCAAAACGTCTGGCAAGGTG GTGTGGGTGACAGCCACCTTCCCTTACATTGTCCTTTCTGTCCTGCTGGTGAGGGGAGCCACCCTTCCTG GAGCCTGGAGAGGGGTTGTCTTTTACTTGAAACCCAACTGGCAGAAACTCTTGGAGACAGGGGTGTGGGT TGATGCTGCGGCTCAGATCTTTTTCTCTCTTGGCCCGGGGTTTGGGGTTCTCCTGGCGTTTGCTAGCTAC AACAAGTTCAACAACAACTGTTACCAAGATGCCCTGGTGACCAGTGTGGTGAACTGCATGACGAGCTTCG TCTCTGGCTTTGTCATCTTCACGGTGCTTGGCTACATGGCTGAGATGAGGAACGAAGACGTGTCCGAGGT GGCCAAAGACGCGGGCCCCAGCCTCCTTTTCATCACATATGCGGAGGCAATACGTAACATGCCAGCATCC ACATTCTTTGCCATCATCTTCTTCCTCATGTTAATCACGCTGGGTTTGGATAGCACGTTTGCAGGCCTGG AAGGTGTGATCACAGCTGTGTTGGATGAGTTTCCTCACATCTGGGCCAAGCGCAGGGAATGGTTTGTGCT CATCGTGGTCATCACT
Notes:	The probe template was PCR amplified from E14.5 mouse embryo cDNA using gene specific primers. Forward Primer - name:unspecified, sequence:AACTACTTCGCCCAGGACAA; Reverse Primer - name:unspecified, sequence:AGTGATGACCACGATGAGCA. The reverse primer contains a 5' extension containing an unspecified 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 unspecified 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:13518 same embryo
	EMAGE:13516 same embryo
	EMAGE:13519 same embryo
	EurExpress:euxassay_019733 same experiment
	MGI:4828265 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