EMAGE mouse gene expression spatial database

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EMAGE:12506

5430416O09Rik RIKEN cDNA 5430416O09 gene ( MGI:1918656)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_011209. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_011209_01	euxassay_011209_02	euxassay_011209_03	euxassay_011209_04

euxassay_011209_05	euxassay_011209_06	euxassay_011209_07	euxassay_011209_08	euxassay_011209_09

euxassay_011209_10	euxassay_011209_11	euxassay_011209_12	euxassay_011209_13	euxassay_011209_14

euxassay_011209_15	euxassay_011209_16	euxassay_011209_17	euxassay_011209_18	euxassay_011209_19

euxassay_011209_20	euxassay_011209_21	euxassay_011209_22	euxassay_011209_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:

12506_wholemount_strong.wlz

12506_wholemount_moderate.wlz

12506_wholemount_weak.wlz

12506_wholemount_possible.wlz

12506_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12506_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

forebrain

strong

regional

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

hindbrain

strong

regional

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

midbrain

strong

regional

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

facial vii ganglion

strong

regional

strong expression: see section 05 06 07 19 20 21

glossopharyngeal ix ganglion

strong

regional

strong expression: see section 07 08 09 18

trigeminal v ganglion

strong

regional

strong expression: see section 03 04 05 06 07 08 09 18 19 20 21 22

vestibulocochlear viii ganglion

strong

regional

strong expression: see section 07 08 18

spinal cord

strong

regional

strong expression: see section 10 11 12 13 14 15 16 17

dorsal root ganglion

strong

regional

strong expression: see section 08 09 10 11 14 15 16 17 18

neural retina

strong

regional

strong expression: see section 01 02 03 22 23

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T37444
Entity Detected:	5430416O09Rik, RIKEN cDNA 5430416O09 gene ( MGI:1918656)
Sequence:	sense strand is shown >T37444 ATGCCTTCCCTTACCCTGTATTCATTCATTCCATTATTCGGTCACTTGTCCTCCATTTGGTGAGCATAGA CAGAGCTCTGCTGTGTACCTGCTCCTGCTCAGAGAAGGTGAGAGTCAGTCAGACCTGGTCCCAGCGCTCA GGGAACACCTGACAGAACAGAAGCGACATGCTTTGGGTGTTGGAGTGGGGTGGGGATAGGGAGAGAGCTG GGAGCCCAGGGAGATTTGAGAGGAGGAGGAGGAGGAGGAGGCCCCTGAACTGGAATGGAAGCAGAGAAGA GTCTTCGATGAGACGATCCAAGAAGGTGTTGGTATAGAGAGCCTGTGGAGCAGGGAGAACAGCAGCTTGG CCTGGCCTGGAGGAGATGAGGCTGGACACTGGTCATCTCCCAAGGGAATCATGTTCCCAGGCAGTGGATG CTAAATATAGTACCGAGGCGGCCTTGGTCCAGGGACAAAAGAGCACATGGCTACCTGCTGCTGATGCAGT GGGAAGGTGGGTCTGACTGAGGGCAGGGTATGGGCCCCAGGCCCTCAGGACTGTGGAGGTGGGTCTGAGG GCAGGGAGATGCAGCCTAGAAGAGTAGGACTTCTAAAACGGAAGGTGGTCCTCCCTGGGGCAATCTAGCA AAGGGCTGAGAGGTATAGTTAGAACAGGAGCAGATCTGGGAGAACACAGACTAGAGACTCTGGGG
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 71252. Forward Primer - name:071252_F_cDNA_5430416O09Rik, sequence:ATGCCTTCCCTTACCCTGTATT; Reverse Primer - name:071252_N_SP6_cDNA_5430416O09Rik, sequence:CCCCAGAGTCTCTAGTCTGTGTT. 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:12505 same embryo
	EurExpress:euxassay_011209 same experiment
	MGI:4822762 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