EMAGE mouse gene expression spatial database

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EMAGE:21615

Ebf3 early B-cell factor 3 ( MGI:894289)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_005263. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_005263_01	euxassay_005263_02	euxassay_005263_03	euxassay_005263_04

euxassay_005263_05	euxassay_005263_06	euxassay_005263_07	euxassay_005263_08	euxassay_005263_09

euxassay_005263_10	euxassay_005263_11	euxassay_005263_12	euxassay_005263_13	euxassay_005263_14

euxassay_005263_15	euxassay_005263_16	euxassay_005263_17	euxassay_005263_18	euxassay_005263_19

euxassay_005263_20	euxassay_005263_21	euxassay_005263_22	euxassay_005263_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:

21615_wholemount_strong.wlz

21615_wholemount_moderate.wlz

21615_wholemount_weak.wlz

21615_wholemount_possible.wlz

21615_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:21615_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

hand

moderate

regional

moderate expression: see section 2 3 4 2 3

foot

moderate

regional

moderate expression: see section 4 5 6 7 8 9 0 1

upper leg rest of mesenchyme

moderate

regional

moderate expression: see section 0 1 2 3

mesenchyme

moderate

regional

moderate expression: see section 1 2 3 4 5 6 7 2 3 4 5 6 7 8 9 0 1 2 3

vibrissa

strong

regional

strong expression: see section 5 6 8 9 0 moderate expression: see section 7 7

hypothalamus mantle layer

strong

regional

strong expression: see section 7 8 9 0 1 2 3 4

diencephalon lateral wall mantle layer

strong

regional

strong expression: see section 6 7 8 9 0 1 2 3 4

telencephalon meninges

strong

regional

strong expression: see section 3 0 1 2 moderate expression: see section 1 2 4 5 6 7 8 9 0 1 2 3 4 5 6 7 8 9

medulla oblongata alar plate mantle layer

strong

homogeneous

strong expression: see section 5 6 7 8 9 0 1 2 3 4 5

medulla oblongata basal plate mantle layer

strong

homogeneous

strong expression: see section 5 6 7 8 9 0 1 2 3 4 5

rest of cerebellum mantle layer

strong

homogeneous

strong expression: see section 1 2 3 4 5 6 7 8 9 0 1 2 3 4 5 6 7 8 9

pons mantle layer

strong

homogeneous

strong expression: see section 4 5 6 7 8 9 0 1 2 3 4 5 6 7

midbrain mantle layer

strong

homogeneous

strong expression: see section 3 4 5 6 7 8 9 0 1 2 3 4 5 6

trigeminal v ganglion

moderate

regional

moderate expression: see section 2 3 4 5 6 7 5 6 7 8 9 0

trigeminal v nerve

moderate

regional

moderate expression: see section 5 6 7 8

spinal cord mantle layer

strong

homogeneous

strong expression: see section 7 8 9 0 1 2 3 4

dorsal root ganglion

strong

regional

strong expression: see section 7 moderate expression: see section 5 6 8 9 3 4 5

neural retina

strong

regional

strong expression: see section 1 2 3 0 1 2 3

nasal cavity olfactory epithelium

strong

regional

strong expression: see section 7 8 9 0 1 3 4 5 6 7

vomeronasal organ

strong

regional

strong expression: see section 1 4

tongue muscle

weak

regional

weak expression: see section 1 2 3 4

lung

moderate

regional

moderate expression: see section 1 weak expression: see section 2 3 4 5 6 7 8 9 0 1 2 3 4 5 6 7 8 9 0 1

sternum

moderate

regional

moderate expression: see section 7 8 9 0 1 3 4 5

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T2679
Entity Detected:	Ebf3, early B-cell factor 3 ( MGI:894289)
Sequence:	sense strand is shown >T2679 GGCCTCGAGCCAGATTCGGCACGAGGATGAAACTTTGTAACTTATTGTAGTTAGAAATTGTAACTTTGAT ATCGAATCTCTTGCCTTCAACAAGCACACTGACAGAGAAAAAAAAATATGCTACTGTCTGTTGGTTCCAA TATTCTCCCACCTAGAGCTTCCTGTTAAAGCAAGTGCGATCAGCAACATTTTTCAACTTTCGCGCACTGT AAACCTATTGCATTCTTAGGCTACTGTGAGGTCTATGTTTCTTGTACCTGAAATTGTCCTTTGGACTCCT AGACCCTTCTTCCCCGATGTGTTTTGTATGTGGTTATAAAATTGTAGACTTTTGTGATTTTGCCAAAGTT GTAGCTAAATATTTATACACTTGTCTTGAATTTTTTTTCAGATCCACTTAAAATATTTAGAAAAACGAGT TTTATTCCTTATGGGTCTTATAGGGGATAAAATGCTCTTCTTCCATGCGACACTTCCTTTCCCATGAACA CTTGCAGTTGCTAAGGGACTTTATTTTGTAACATATTAATTATAAATATTGTATTTATCTTTGAAATTTT GTACATTGCTTTCCCTGCCTTCTTTT
Notes:	The probe template was PCR amplified from IMAGE:1511771 using vector specific primers. Forward Primer - name:RZPD M13 forward, sequence:GCTATTACGCCAGCTGGCGAAAGGGGGATGTG; Reverse Primer - name:RZPD M13 reverse, sequence:CCCCAGGCTTTACACTTTATGCTTCCGGCTCG. 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:1511771 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:	EurExpress:euxassay_005263 same experiment
	EMAGE:21616 same embryo
	EMAGE:21617 same embryo
	EMAGE:21614 same embryo
	EMAGE:21613 same embryo
	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