EMAGE mouse gene expression spatial database

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EMAGE:15305

Efnb3 ephrin B3 ( MGI:109196)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010485. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010485_01	euxassay_010485_02	euxassay_010485_03	euxassay_010485_04

euxassay_010485_05	euxassay_010485_06	euxassay_010485_07	euxassay_010485_08	euxassay_010485_09

euxassay_010485_10	euxassay_010485_11	euxassay_010485_12	euxassay_010485_13	euxassay_010485_14

euxassay_010485_15	euxassay_010485_16	euxassay_010485_17	euxassay_010485_18	euxassay_010485_19

euxassay_010485_20	euxassay_010485_21	euxassay_010485_22	euxassay_010485_23	euxassay_010485_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:

15305_wholemount_strong.wlz

15305_wholemount_moderate.wlz

15305_wholemount_weak.wlz

15305_wholemount_possible.wlz

15305_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:15305_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

hypothalamus mantle layer

moderate

regional

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

diencephalon lateral wall mantle layer

moderate

regional

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

diencephalon lateral wall ventricular layer

strong

regional

strong expression: see section 13

telencephalon mantle layer

moderate

regional

moderate expression: see section 03 04 05 06 07 08 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24

olfactory cortex marginal layer

weak

regional

weak expression: see section 11 12 13 16 17 18

medulla oblongata basal plate mantle layer

strong

regional

strong expression: see section 10 11

pons ventricular layer

strong

regional

strong expression: see section 12

midbrain mantle layer

moderate

regional

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

midbrain ventricular layer

strong

regional

strong expression: see section 11 12

dorsal grey horn

strong

regional

strong expression: see section 09 10 11 12

ventral grey horn

strong

regional

strong expression: see section 10 11 12

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T30545
Entity Detected:	Efnb3, ephrin B3 ( MGI:109196)
Sequence:	sense strand is shown >T30545 GTTAGGTTTTGCGGGGCTGGTATCTGGACTCAGCCTGGAGCCTGTCTACTGGAACTCGGCGAATAAGAGG TTCCAGGCAGAGGGCGGTTACGTGCTTTATCCTCAGATCGGGGACCGGCTAGATCTACTTTGTCCCCGGG CTCGGCCTCCTGGCCCCCACTCCTCTCCTAGTTATGAGTTCTACAAACTGTACCTGGTAGAGGGTGCCCA GGGTCGGCGTTGTGAGGCACCCCCTGCCCCAAACCTTCTTCTCACATGTGACCGGCCAGACCTGGACCTC CGCTTCACCATCAAGTTCCAGGAATACAGCCCTAACCTCTGGGGCCACGAGTTCCGATCCCACCACGATT ACTACATAATTGCCACATCAGACGGGACCCGGGAAGGCCTTGAGAGCTTGCAAGGAGGCGTGTGCCTAAC CAGAGGCATGAAGGTGCTTCTGCGAGTGGGACAAAGTCCCCGAGGAGGAGCTGTACCCCGAAAACCTGTG TCTGAAATGCCCATGGAGAGAGACAGAGGGGCAGCTCACAGCGCGGAACCTGGGAGGGACACCATACCAG GTGACCCCAGCAGCAATGCAACCTCCCGGGGTGCTGAAGGCCCCCTGCCCCCTCCCAGCATGCCCGCAGT GGCTGGGGCAGCAGGGGGGATGGCGCTGCTCTTGCTGGGCGTGGCAGGGGCTGGGGGTGCCATGTGTTGG CGGAGACGGCGGGCCAAGCCTTCGGAGAGTCGCCACCCTGGTCCTGGCTCCTTTGGGAGGGGAGGGTCTC TGGGCCTGGGTGGTGGAGGAGGGATGGGGCCTCGGGAAGCTGAGCCTGGGGAGCTAGGA
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from the plasmid IMAGE:5695429), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 59031. Forward Primer - name:059031_F_IRAV111_d04_Efnb3, sequence:GTTAGGTTTTGCGGGGCT; Reverse Primer - name:059031_R_SP6_IRAV111_d04_Efnb3, sequence:TTCCTAGCTCCCCAGGCT. 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:15309 same embryo
	EMAGE:15307 same embryo
	EMAGE:15308 same embryo
	EMAGE:15310 same embryo
	EMAGE:15306 same embryo
	EurExpress:euxassay_010485 same experiment
	MGI:4824488 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