EMAGE mouse gene expression spatial database

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EMAGE:18495

Rapgef6 Rap guanine nucleotide exchange factor (GEF) 6 ( MGI:2384761)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_014450. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_014450_01	euxassay_014450_02	euxassay_014450_03	euxassay_014450_04

euxassay_014450_05	euxassay_014450_06	euxassay_014450_07	euxassay_014450_08	euxassay_014450_09

euxassay_014450_10	euxassay_014450_11	euxassay_014450_12	euxassay_014450_13	euxassay_014450_14

euxassay_014450_15	euxassay_014450_16	euxassay_014450_17	euxassay_014450_18	euxassay_014450_19

euxassay_014450_20	euxassay_014450_21	euxassay_014450_22	euxassay_014450_23	euxassay_014450_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:

18495_wholemount_strong.wlz

18495_wholemount_moderate.wlz

18495_wholemount_weak.wlz

18495_wholemount_possible.wlz

18495_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:18495_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

medulla oblongata basal plate mantle layer

moderate

single cell

moderate expression: see section 04 05 06 07 08 10 11 weak expression: see section 12 13 14

pons mantle layer

moderate

single cell

moderate expression: see section 03 04 05 06 07 08 weak expression: see section 13 14 15 16

midbrain mantle layer

moderate

single cell

moderate expression: see section 10 11 weak expression: see section 05 06 07 12 13 14

facial vii ganglion

moderate

single cell

moderate expression: see section 03 17 18

glossopharyngeal ix ganglion

moderate

single cell

moderate expression: see section 04 05 15

trigeminal v ganglion

moderate

single cell

moderate expression: see section 02 03 04 05 06 07 15 16 17 18 19 20

vagus x ganglion

moderate

single cell

moderate expression: see section 06

vestibulocochlear viii ganglion

moderate

single cell

moderate expression: see section 04 05 06 15 16

trigeminal v nerve

weak

single cell

weak expression: see section 08 15

ventral grey horn

moderate

single cell

moderate expression: see section 06 07 08 10 11 12 13 14 15 16

cervico-thoracic ganglion

moderate

regional

moderate expression: see section 07 weak expression: see section 13

thoracic ganglion

weak

regional

weak expression: see section 12 13 14

dorsal root ganglion

moderate

single cell

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

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T37969
Entity Detected:	Rapgef6, Rap guanine nucleotide exchange factor (GEF) 6 ( MGI:2384761)
Sequence:	sense strand is shown >T37969 CCTCACCCAAGAAAGGTGATAGGTATAGGGAGCCACCGCCCACTCCTCCAGGATATCTGGGAATTTCTTT AGCGGACCTAAAGGAAGGACCCCACCCGCACCTAAAACCTCCAGACTATAGTGTGGCAGTACAGAGATCA AAGATGATGCTTAACAGCCTGTCTAGACTGCCGCCAGCTCCTCCCAGTAGCCACACCTCGGCCTGGGTTC CCTCGAAGATTGGATCCCAGCCTCAAAGGCATAGCCATCCCAAGCTAGCAGATGTGGCTGATGCAGATAG CGAAGCAGATGAAAACGAGCAGGTGTCAGCAGTCTAGCCTTTGGACAGAGTGTTGGAGAGCACTGGAAGT CAGGACCATGGACAAGAGCTCGTGGTTCTGTAGGCCAAGGCCATCAGCTCGCTGCTGCCACTCATGCTGA GGGTTCCACACTGGGCTCTGAGGATGAGCTCTTCTGAGTCGTGCTTCCTTTTGTTCTGTCCCTGCAGGTG CAGTTTCCTTACCTGGGTGTTGCACCTGATCTCAGCCTATACTTTGCACATCACTCCTGCCTTGGGACCA CATTCAAGCTCAGAGTTCTCCCCCTGTATATCACTATGA
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 83566. Forward Primer - name:083566_F_cDNA_Rapgef6, sequence:CCTCACCCAAGAAAGGTGATAG; Reverse Primer - name:083566_N_SP6_cDNA_Rapgef6, sequence:TCATAGTGATATACAGGGGGAGA. 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:18499 same embryo
	EMAGE:18498 same embryo
	EMAGE:18497 same embryo
	EMAGE:18496 same embryo
	EMAGE:18494 same embryo
	EurExpress:euxassay_014450 same experiment
	MGI:4827614 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