EMAGE mouse gene expression spatial database

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EMAGE:19273

Rdh5 retinol dehydrogenase 5 ( MGI:1201412)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_001873. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_001873_01	euxassay_001873_02	euxassay_001873_03	euxassay_001873_04

euxassay_001873_05	euxassay_001873_06	euxassay_001873_07	euxassay_001873_08	euxassay_001873_09

euxassay_001873_10	euxassay_001873_11	euxassay_001873_12	euxassay_001873_13	euxassay_001873_14

euxassay_001873_15	euxassay_001873_16	euxassay_001873_17	euxassay_001873_18	euxassay_001873_19

euxassay_001873_20	euxassay_001873_21	euxassay_001873_22	euxassay_001873_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:

19273_wholemount_strong.wlz

19273_wholemount_moderate.wlz

19273_wholemount_weak.wlz

19273_wholemount_possible.wlz

19273_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:19273_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

diencephalon lateral wall ventricular layer

moderate

regional

moderate expression: see section 09 10 11

lateral ventricle choroid plexus

moderate

regional

moderate expression: see section 06 07 08 09 13 14 15 16 17

medulla oblongata alar plate ventricular layer

strong

regional

strong expression: see section 08 12 13 14 15 moderate expression: see section 06 07

medulla oblongata basal plate ventricular layer

strong

regional

strong expression: see section 09 10 11

rest of cerebellum marginal layer

strong

regional

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

rest of cerebellum ventricular layer

strong

regional

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

midbrain ventricular layer

strong

regional

strong expression: see section 09 10 weak expression: see section 11 12

spinal cord ventricular layer

moderate

regional

moderate expression: see section 09 10 11

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T1202
Entity Detected:	Rdh5, retinol dehydrogenase 5 ( MGI:1201412)
Sequence:	sense strand is shown >T1202 CCTCGAGACTGTTGGCCTACTGGACACATTGTGTTGCCTGCCAGCTTTCCCCAGAGCCTAGGCTGCCCTC AGCAGGGCATCTCATCCCATCATGTGGCTGCCTCTGCTTCTGGGTGCCTTGCTGTGGGCAGTGCTGTGGT TGCTCAGAGACCGGCAGAGCCTGCCGGCCAGTGATGCTTTCATCTTCATCACTGGCTGTGACTCTGGCTT TGGGCGCCTTCTGGCACTGCAACTTGACCAGAAGGGCTTCCAAGTCCTGGCCGGCTGCCTGACCCCCTCT GGAGCAGAAGACCTGCAGCAGATGGCCTCCTCCCGCCTCCACACAACACTACTGGATATCACTGATCCCC AGAATGTCCAGCAAGTTGCCAAGTGGGTGAAGACACGTGTTGGAGAAACTGGACTTTTTGGTCTGGTGAA TAACGCTGGCGTAGCTGGTATCATCGGGCCCACACCATGGCTAACACAGGATGATTTCCAGAGAGTACTG AGTGTGAACACACTGGGGCCCATCGGTGTCACCCTTGCCCTGCTGCCCCTGCTACAGCAGGCCAGGGGTC GGGTGGTC
Notes:	The probe template was PCR amplified from IMAGE:2182461 using vector specific primers. Forward Primer - name:T7-pME18S-FL3-fw, sequence:CGTAATACGACTCACTATAGGGCCTTCTGCTCTAAAAGCTGCG; Reverse Primer - name:T3-pME18S-FL3-rv, sequence:CAAATTAACCCTCACTAAAGGGCGACCTGCAGCTCGAGCAC. 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:2182461 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:	EMAGE:19271 same embryo
	EMAGE:19270 same embryo
	EMAGE:19269 same embryo
	EMAGE:19272 same embryo
	EurExpress:euxassay_001873 same experiment
	MGI:4827675 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