EMAGE mouse gene expression spatial database

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EMAGE:20759

Plxnd1 plexin D1 ( MGI:2154244)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_014199. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_014199_01	euxassay_014199_02	euxassay_014199_03	euxassay_014199_04

euxassay_014199_05	euxassay_014199_06	euxassay_014199_07	euxassay_014199_08	euxassay_014199_09

euxassay_014199_10	euxassay_014199_11	euxassay_014199_12	euxassay_014199_13	euxassay_014199_14

euxassay_014199_15	euxassay_014199_16	euxassay_014199_17	euxassay_014199_18	euxassay_014199_19

euxassay_014199_20	euxassay_014199_21	euxassay_014199_22	euxassay_014199_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:

20759_wholemount_strong.wlz

20759_wholemount_moderate.wlz

20759_wholemount_weak.wlz

20759_wholemount_possible.wlz

20759_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20759_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

embryo

strong

other

strong expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T40179
Entity Detected:	Plxnd1, plexin D1 ( MGI:2154244)
Sequence:	sense strand is shown >T40179 CCACTACAAGATACCTGAGGGCGCCTCCCTAGCCATGAGCCTCACAGACAAGAAGGACAGTACCCTGGGC AGAGTGAAAGACTTGGACACAGAAAAGTATTTCCATTTGGTGCTACCTACGGATGAGCTGGTAGAGCCTA AGAAATCTCACCGGCAGAGCCACCGCAAGAAAGTATTGCCAGAGATCTACCTGACCCGCCTGCTGTCCAC CAAGGGCACGCTGCAGAAGTTCCTAGATGACCTGTTCAAGGCTATCCTGAGCATCCGAGAGGACAAGCCC CCGCTGGCTGTCAAGTATTTCTTTGACTTCCTAGAGGAACAGGCGGAGAAGAGAGGCATCTCCGACCCTG ACACCCTGCATATCTGGAAGACCAACAGCCTTCCCCTGCGCTTCTGGGTGAACATCTTAAAAAATCCCCA GTTTGTCTTCGACATAGAGAAGACGGACCACATCGACGCCTGCCTGTCTGTCATCGCACAGGCCTTCATC GATGCCTGCTCCATCTCTGACCTGCAGCTGGGCAAGGACTCACCCACCAACAAGCTTCTGTACGCGAAGG AGATCCCTGAGTACCGGAAGACCGTACAGCGCTATTATAAACAGATCCAAGACATGACGCCGCTCAGCGA GCAGGAAATGAACGCACACCTGGCCGAGGAGTCTCGGAAATACCAGAATGAGTTCAACACAAACGTGGCC ATGGCTGAGATTTATAAATATGCTAAGAGGTATCGACCACAGATCATGGCTGCCCTGGAGGCCAACCCCA CAGCCCGCAGGACCCAGCTACAGCACAAGTTTGAACAGGTGGTGGCTCTGATGGAAAACAATATCTATGA GTGTTACAGCGAGGCCTGATGCAGAAGAGTGACCAGGAGCTTCG
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 80143. Forward Primer - name:080143_F_cDNA_Plxnd1, sequence:CCACTACAAGATACCTGAGGGC; Reverse Primer - name:080143_N_SP6_cDNA_Plxnd1, sequence:CGAAGCTCCTGGTCACTCTTC. 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:20758 same embryo
	EMAGE:20757 same embryo
	EMAGE:20756 same embryo
	EMAGE:20760 same embryo
	EMAGE:20761 same embryo
	EurExpress:euxassay_014199 same experiment
	MGI:4827294 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