EMAGE mouse gene expression spatial database

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EMAGE:10552

Smarcd3 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3 ( MGI:1914243)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000668. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000668_01	euxassay_000668_02	euxassay_000668_03	euxassay_000668_04

euxassay_000668_05	euxassay_000668_06	euxassay_000668_07	euxassay_000668_08	euxassay_000668_09

euxassay_000668_10	euxassay_000668_11	euxassay_000668_12	euxassay_000668_13	euxassay_000668_14

euxassay_000668_15	euxassay_000668_16	euxassay_000668_17	euxassay_000668_18	euxassay_000668_19

euxassay_000668_20	euxassay_000668_21	euxassay_000668_22	euxassay_000668_23	euxassay_000668_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:

10552_wholemount_strong.wlz

10552_wholemount_moderate.wlz

10552_wholemount_weak.wlz

10552_wholemount_possible.wlz

10552_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:10552_all_domains.zip

Find spatially similar wholemount expression patterns:

EMAGE spatially similar wholemount patterns

Morphological match to the template:

Annotation Validation:

spatial mapping by EMAGE editor

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T978
Entity Detected:	Smarcd3, SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3 ( MGI:1914243)
Sequence:	sense strand is shown >T978 AGNCTGTTGGCCTACTGGGTGAGAGAGCCCAGCAGGACTCAGAGGGGAGAGTTGGAGGAAAAAAAAGGCA GAAAAGGGAAAGAAAGAGGAAGAGAGAGAGAGAGTGAGAGGAGCCGCTGAGCCCACCCCGATGGCCGCGG ACGAAGTTGCCGGAGGGGCGCGCAAAGCCACGAAAAGCAAACTTTTTGAGTTTCTGGTCCATGGGGTGCG CCCCGGGATGCCGTCTGGAGCCCGAATGCCCCACCAGGGGGCGCCCATGGGCCCCCCGGGCTCCCCGTAC ATGGGCAGCCCCGCGGTACGACCCGGCCTGGCCCCCGCGGGCATGGAGCCCGCCCGCAAGCGAGCAGCGC CCCCGCCCGGGCAGAGCCAGGCACAGGGCCAGGGCCAGCCCGTGCCCACCGCCCCAGCGCGGAGCCGCAG TGCCAAGAGGAGGAAGATGGCTGACAAAATCCTCCCTCAAAGGATTCGGGAGCTGGTACCCGAGTCCCAG GCTTACACGGACCTCCTAGCATTTGAGAGGAA
Notes:	The probe template was PCR amplified from IMAGE:1971964 using vector specific primers. Forward Primer - name:T7-pME18S-FL3-fw, sequence:CGTAATACGACTCACTATAGGGCCTTCTGCTCTAAAAGCTGCG; Reverse Primer - name:T3-pME18S-FL3-rv, sequence:CAAATTAACCCTCACTAAAGGGCGACCTGCAGCTCGAGCAC. Anti-sense probe was then transcribed from the PCR amplified template using T3 polymerase. EMAGE Editor's Note: the partial probe sequence indicated here was given by the EURExpress Consortium and has been checked using BLAST comparison against all available partial insert sequences of IMAGE:1971964 from NCBI. In cases where no BLAST hit was found (because the two sequence reads are found at opposing ends of the insert sequence), both end sequences were then checked against the appropriate cDNA RefSeq to ensure validity of the information.
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:10554 same embryo
	EMAGE:10556 same embryo
	EMAGE:10553 same embryo
	EMAGE:10555 same embryo
	EurExpress:euxassay_000668 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