EMAGE mouse gene expression spatial database

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EMAGE:11340

Slc6a9 solute carrier family 6 (neurotransmitter transporter, glycine), member 9 ( MGI:95760)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_003521. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_003521_01	euxassay_003521_02	euxassay_003521_03	euxassay_003521_04

euxassay_003521_05	euxassay_003521_06	euxassay_003521_07	euxassay_003521_08	euxassay_003521_09

euxassay_003521_10	euxassay_003521_11	euxassay_003521_12	euxassay_003521_13	euxassay_003521_14

euxassay_003521_15	euxassay_003521_16	euxassay_003521_17	euxassay_003521_18	euxassay_003521_19

euxassay_003521_20	euxassay_003521_21	euxassay_003521_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:

11340_wholemount_strong.wlz

11340_wholemount_moderate.wlz

11340_wholemount_weak.wlz

11340_wholemount_possible.wlz

11340_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:11340_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 ventricular layer

strong

regional

strong expression: see section 11 12 moderate expression: see section 10

diencephalon meninges

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16 17 weak expression: see section 07 08 09

medulla oblongata basal plate ventricular layer

strong

regional

strong expression: see section 09 10 11 12 13

hindbrain meninges

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16 17 weak expression: see section 07 08 09

pons ventricular layer

strong

regional

strong expression: see section 07 08 09 11 12 13 14 15 16 weak expression: see section 06 17

midbrain meninges

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16 17 18 weak expression: see section 07 08 09

midbrain ventricular layer

strong

regional

strong expression: see section 09 10 11 12 13 14 15

ventral grey horn

strong

single cell

strong expression: see section 10 11 12

spinal cord ventricular layer

strong

regional

strong expression: see section 10 11 12

spinal cord meninges

moderate

regional

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

liver left lobe

strong

regional

strong expression: see section 01 02 03 04 05 06 07 08 09 moderate expression: see section 10

liver right lobe

strong

regional

strong expression: see section 11 12 13 14 15 16 17 18 19 20 21 22

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T7399
Entity Detected:	Slc6a9, solute carrier family 6 (neurotransmitter transporter, glycine), member 9 ( MGI:95760)
Sequence:	sense strand is shown >T7399 CGCGGTGCGGACCCAGCACGCCTGGGCCGGGGGCAGCAGTATGCTCTTGAGGCCTGTTGTCTGAAAGGCA CTGAACGCAAGAGTCTGCAAGTGTGGTCCAGATCTCCAGATCCCCCAACCCACTGCCACCATGGTAGGAA AAGGTGCCAAAGGGATGTTGAATGGTGCTGTGCCCAGCGAGGCCACCAAGAAGGACCAGAACCTCACACG GGGCAACTGGGGCAACCAGATCGAGTTTGTACTGACGAGCGTGGGCTATGCCGTGGGCCTGGGCAATGTC TGGCGTTTCCCATACCTCTGCTATCGCAACGGGGGAGGAGCCTTCATGTTCCCCTACTTCATCATGCTGA TCTTCTGCGGGATTCCTCTCTTCTTCATGGAGCTTTCCTTCGGCCAGTTTGCAAGCCAGGGCTGCCTGGG GGTCTGGCGGATCAGCCCCATGTTCAAAGGCGTGGGCTATGGTATGATGGTGGTGTCCACATACATTGGC ATCTACTACAACGTGGTCATCTGCATCGCCTTCTACTACTTCTTCTCGTCCATGACGCACGTGCTGCCCT GGGCGTACTGCAACAACCCCTGGAACACACCTGACTGTGCCGGTGTGCTGGACGCTTCCAACCTCACCAA TGGCTCCCGGCCCGCTGCCCTGTCTGGCAACCTGTCTCACCTGTTCAACTACACCTTGCAAAGGACCAGC CCCAGCGAGGAGTACTGGAGGCTGTATGTGCTGAAGCTGTCAGACGACATTGGAAACTTTGGGGAAGTGC GGCTTCCCCTCCTAGGCTGCCTCGGCGTCTCCTGGGTGGTTGTCTTCCTCTGTCTCATCCGAGGAGTCAA GTCTTCAGGGAAAGTGGTGTACTTCACGGCCACATTCCCCTATGTGGTGCTGACCATTCTGTTTGTTCGT GGAGTGACCCTGGAAGGAGCCTTCACGGGTATCATGTACTACCTGACCCCACAATGGGACAAGATCCTGG AGGCCAAGGTCTGGGGGGATGCAGCCTCTCAGATCTTCTATTCCCTGGGCTGTGCATGGGGTGGCCTCAT CACCATGGCGTCCTACAACAAATTTCACAACAACTGCTACCGGGACAGCGTCATTATCAGTATCACCAAC TGTGCTACCAGCGTCTACGCCGGCTTCGTCATCTTCTCCATCCTGGGCTTCATGGCCAATCACCTGGGTG TGGATGTGTCTCGGGTGGCAGACCATGGGCCTGGGCTAGCTTTTGTCGCTTACCCTGAGGCTCTCACGCT GCTTCCCATCTCTCCACTCTGGTCCTTATTGTTTTTCTTCATGCTCATCTTGCTGGGGCTGGGTACTCAG TTCTGCCTCCTAGAGACCCTGGTCACTGCCATTGTGGATGAGGTAGGGAATGAGTGGATTCTGCAGAAGA AGACCTACGTGACCTTGGGCGTCGCTGTGGCTGGCTTCTTGCTGGGCATCCCCCTTACCAGCCAGGCAGG CATCTACTGGCTGCTGCTGATGGACAACTATGCAGCCAGCTTCTCCTTGGTTGTCATCTCCTGTATCATG TGTGTATCCATCATGTACATCTATGGGCACCGTAACTACTTCCAGGACATCCAGATGATGCTAGGATTTC CCCCGCCTCTCTTCTTCCAGATCTGTTGGCGCTTTGTTTCTCCGGCTATCATCTTTTTCATTCTCATCTT CACGGTGATCCAGTACCGGCCAATCACCTACAACCACTACCAGTACCCAGGCTGGGCTGTGGCCATCGGC TTCCTCATGGCTTTGTCGTCTGTCATCTGCATCCCACTGTACGCGCTGTTCCAGCTCTGCCGCACAGATG GGGACACACTTCTTCAGCGTTTGAAAAATGCCACAAAGCCAAGCAGAGACTGGGGCCCCGCTCTCCTGGA GCACCGGACTGGGCGCTACGCTCCCACTACAACCCCCTCTCCCGAAGACGGGTTTGAGGTCCAGCCACTG CACCCGGACAAGGCCCAGATTCCCATCGTGGGCAGTAACGGCTCCAGCCGCTTCCAGGACTCCCGGATAT GAGCGCAATTGTTGCAAGGGGAGAAACCCCACCCAACCCTTGCTCCCACCACGGAGACTGGGAGGCGGAC AGGTGGAGGCCTGCCCCATCACACCCTGTCTGGGATGGCTGCTGTCACCTTGACCACCACTGCTCATGTC CCCAGTGTTTACACATCCTTTGGATGCCAAGACAGCAGCTGGGGGTGGGAAAGCGATGGGGGAATTGGGG GGAGCGGGCATGGGGAAGCAGTGTCCAAAGCACTTTGGAGGAGGCCTGCCAGGCTTCCTATGGCCTCTGA TACCCTCATGCTCTGCCCTGAGCTGTTTCACTATGGGATAAGAGGTTCTGTGTCCACATCCCACCGGTTC CCCTCAGCCTCGTGACCAGTGTTCCTGACCCCAGAACAGACCCTAGCCTCTGCCCAGGAAAATCTGTATC TTCCTCCTCCAGACAAGGTGAGGGCCCCGGGGCTGTACAGTGTTACTTGTTGGACTGCACCACTCAGCCC TGTTTATTTGTGTAATTATTTTTTTTTTAAATTGTATTACCTGTGGTTGCCATCCCCTGCCCCAGCCTTG GGTCCAGTGTGTCTTCCAGGCCTGCCTGCACCTCACTTGGCTGCTCCAGGGTCTCTATCCTTTGTTCCAA CCCTGGTTGTCAGGCCCAGCCAGCAAAGGCCCACGACCCAGCAGCCTGCCCAAAGCACTTGTTTATGGAG GGAAAGAAGGGGACTTCTCTGTAGGAAGCTTGAGCCCAGAGCCCTGGGGAAGGGGACCCTGTTCCACATT CCCTTGCCCACCCTCCACCAGGTCGGAGGCCCAGTCTTCCCAGACGTGCTAACCCCATTCAATGTGCCAA ATGGCCTCAGTCCATGTGCCCGTCCCCCCTCTGCAGTCAGAGCACCTTCTCCCAAGACCCGCAGTCCGTT TGTCCGTCCTCTGTGCCCTCTGCAGTGACAGCCCTGGCCAAGCCACTTCTAATCCTCTGTAGCAATAACG GTGTGCCGCCCGCCGCTGCCCAGTGTGTGCAGAACTAGGGTTTTAAAGTCCGTAGGTTTTAATGAAATTT CTATTCCTGTCTCTGAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:4194951 using vector (pCMV-SPORT6) specific primers. Forward Primer - name:RZPD T7, sequence:TAATACGACTCACTATAGGG; Reverse Primer - name:RZPD sp6, sequence:ATTTAGGTGACACTATAG. Anti-sense probe was then transcribed from the PCR amplified template using Sp6 polymerase. EMAGE Editor's Note: the probe sequence indicated here was given by the EURExpress Consortium and has been checked using a computational method whereby a BLAST comparison was made against the full insert sequence of IMAGE:4194951 which was retrieved directly from NCBI.
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:11337 same embryo
	EMAGE:11339 same embryo
	EMAGE:11342 same embryo
	EMAGE:11338 same embryo
	EMAGE:11341 same embryo
	EurExpress:euxassay_003521 same experiment
	MGI:4828270 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