EMAGE mouse gene expression spatial database

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EMAGE:20713

Csmd3 CUB and Sushi multiple domains 3 ( MGI:2386403)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_013996. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_013996_01	euxassay_013996_02	euxassay_013996_03	euxassay_013996_04

euxassay_013996_05	euxassay_013996_06	euxassay_013996_07	euxassay_013996_08	euxassay_013996_09

euxassay_013996_10	euxassay_013996_11	euxassay_013996_12	euxassay_013996_13	euxassay_013996_14

euxassay_013996_15	euxassay_013996_16	euxassay_013996_17	euxassay_013996_18	euxassay_013996_19

euxassay_013996_20	euxassay_013996_21	euxassay_013996_22	euxassay_013996_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:

20713_wholemount_strong.wlz

20713_wholemount_moderate.wlz

20713_wholemount_weak.wlz

20713_wholemount_possible.wlz

20713_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20713_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

moderate

regional

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

telencephalon mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 09 10 11 13 14 15 16 17 18 19 20 21 weak expression: see section 08 12

medulla oblongata alar plate mantle layer

moderate

regional

moderate expression: see section 09 10 11 13 14 15 17 18 19 weak expression: see section 12 16

medulla oblongata basal plate mantle layer

moderate

regional

moderate expression: see section 09 10 11 13 14 15 17 18 19 weak expression: see section 08 16

pons mantle layer

moderate

regional

moderate expression: see section 06 07 09 10 11 13 14 15 17 18 19 weak expression: see section 08 12 16

midbrain mantle layer

moderate

regional

moderate expression: see section 09 13 14 15 16 17 18

tegmentum

moderate

regional

moderate expression: see section 10 11 12

heart ventricle

strong

spotted

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

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T39579
Entity Detected:	Csmd3, CUB and Sushi multiple domains 3 ( MGI:2386403)
Sequence:	sense strand is shown >T39579 CCTGCTCATGCAAACGTAGTAGGAATGGACCTTCCCTCCCATGGGTACACACTCATCTATACATGTCAGC CTGGCTTCTTCTTAGCAGGGGGAACTGAGCATAGAGTATGCAGATCTGATAATACCTGGACTGGAAAAGT TCCTGTCTGTGAAGCTGGTTCCAAAATATTAGTGAAAGATCCTCGACCTGCATTAGGAACACCTAGTCCG AAGCTAAGTGTTCCTGATGATGTGTTTGCCCAGAATTATATATGGAAAGGCTCTTATAATTTCAAAGGAA GGAAACAGCCCATGACCTTGACAGTCACTAGCTTCAATGCCTCTACTGGCAGAGTCAATGCGACACTGAG CAACAGCGACATGGAGTTGCTGCTTTCAGGGGTCTACAAAAGCCAGGAAGCCCGCCTAATGTTACATATA TATCTTATTAAAGTGCCAGCACATGCTTCTGTGAAGAAAATGAAGGAAGAAAATTGGGCCATGGATGGAT TTGTTTCTGCTGAGCCTGATGGAGCTACTTATGTATTCCAAGGATTTATTAAAGGCAAAGATTATGGGCA ATTTGGACTACAAAGACTAGGACTGAATACTTCAGAAGGGTCAAATTCTTCAAATCAGCCTCATGGTACA AATAGCAGTTCTGTGGCCATTGCGATACTTGTGCCTTTTTTTGCACTTATATTTGCAGGATTTGGGTTTT ATCTTTACAAACAAAGGACTGCACCCAAAACACAGTACACAGGATGTTCTGTTCATGAAAATAACAATGG CCAAGCAGCCTTTGAGAACCCCATGTATGACACCAATGCCAAGTCTGTGGAGGGGAAGGCAGTACGATTC GACCCCAACTTGAACACAGTTT
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 85021. Forward Primer - name:085021_F_cDNA_Csmd3, sequence:CCTGCTCATGCAAACGTAGTAG; Reverse Primer - name:085021_N_SP6_cDNA_Csmd3, sequence:AAACTGTGTTCAAGTTGGGGTC. 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:20712 same embryo
	EurExpress:euxassay_013996 same experiment
	MGI:4824081 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