EMAGE mouse gene expression spatial database

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EMAGE:10998

Rax retina and anterior neural fold homeobox ( MGI:109632)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_001277. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_001277_01	euxassay_001277_02	euxassay_001277_03	euxassay_001277_04

euxassay_001277_05	euxassay_001277_06	euxassay_001277_07	euxassay_001277_08	euxassay_001277_09

euxassay_001277_10	euxassay_001277_11	euxassay_001277_12	euxassay_001277_13	euxassay_001277_14

euxassay_001277_15	euxassay_001277_16	euxassay_001277_17	euxassay_001277_18	euxassay_001277_19

euxassay_001277_20	euxassay_001277_21	euxassay_001277_22	euxassay_001277_23	euxassay_001277_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:

10998_wholemount_strong.wlz

10998_wholemount_moderate.wlz

10998_wholemount_weak.wlz

10998_wholemount_possible.wlz

10998_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:10998_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

hypothalamus mantle layer

strong

regional

strong expression: see section 12 14

hypothalamus ventricular layer

strong

regional

strong expression: see section 13 14 weak expression: see section 15

midbrain mantle layer

moderate

regional

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

neural retina

strong

regional

strong expression: see section 01 02 03 04 05 06 24

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T5407
Entity Detected:	Rax, retina and anterior neural fold homeobox ( MGI:109632)
Sequence:	sense strand is shown >T5407 GCCTTTAGCACCAAAGCTCCAGTTACCCTGAGGCTAAACTTGCAGCTCCAGCAGCGGGTCCGTTAATCGC TGGCCCAGCGCTTGCCCACCTCCTGAGCCGTTGCCCAAGCCGGTTGCCCGCCGAGTTTAGCTTTGGACAG ACCGATCCACCGAGTTTAGCTTTGGACCGACCCATCCATTTGCTCACGTTCTAGAAGTGCACACTTGAGG GGGTGGAGGAGGAGAAGGGAACCGGGCATCGAGCTCCAGTTTGCAAAGTGCACTCCCTCCTCTCCATGCA CCTGCCGGGCTGCGCGCCAGCCATGGCGGACGGGAGCTTCTCGCTCGCTGGCCACCTGCTCCGCAGCCCG GGCGGGAGCACGTCGCGTTTGCACAGCATCGAAGCCATCCTGGGCTTTACCAAGGAAGACGGCATCCTAG ACACCTTTCCTGCAGAGAGGAGCTCCAGGAGCTCGAAAGAGCGGGATCCCAGGCTGGGCGCGCAGCCTGC CTGCCCCAAGGCGCCAGCCGGAGGCTCCGAGTCTTCCCCACCAGCAGCCCCGGGATTCGTCCCGGAGTAC GAAGCTACTAGGCCCTGCTACCCCAAGGAGCAAGGAGAAGCACGTCCGAGCCCAGGACTCTCGGTTGGGC CAGCAGCAGGCGACTCGAAGCTGTCGGAGGAGGAACCTCCCAAGAAGAAGCATCGACGCAACCGCACGAC GTTCACCACTTACCAACTGCACGAGCTGGAGCGCGCCTTCGAGAAGTCCCACTACCCCGACGTGTACAGC CGCGAAGAGCTGGCCGGCAAGGTTAACCTACCCGAGGTTCGGGTCCAGGTATGGTTCCAGAACCGACGGG CTAAGTGGAGGCGCCAGGAGAAACTGGAAGTGTCGTCCATGAAGCTGCAGGATTCTCCCCTCCTCTCCTT CAGCCGCTCCCCGCCTTCCTCGGCACTGGCCCCGCTGGGAACCGGCCCGGGCAGCGGGAGCGGACCTCCG GGGAGCGCCCTGCCGCTGGAGCCGTGGCTTGGGCCACCGCTGCCCGGAGGAGGCGCCACAGCGCTGCAGA GCCTGCCGGGATTCGGGCCGCCGGGGCAGGGTCTCCCGGCCAGCTACACGCCACCACCGCCCTTCCTGAA CTCCGCGCCCCTGGGTCCAGGTCTGCAGCAGCTCGGGCCACCGCCCGCGTACCCCTGCGCGCCGGCATTC GGGGACAAGTTCTCGCTGGAAGAGGCGTACCCGCGCAACAGCAGCATCGCCGCTCTGCGCCTGAAGGCCA AAGAGCACATCCAGGCCATCGGAAAGCCCTGGCAAGCCCTCTAGAGGCGCTGCGGAGTTGCTGCGAGCCC TGTGTGCACCCAGCCCAGCCTGGTGGCCGAACTTTTCTTTGCTAGCCCTGCTGCAAGCCGCCAGCCAGCC TTGGGCGGGACACTCGCGCCTACTCTTCGAAAGAGGCCAAACGGAAATTCAGCCTCGCTGTCAGAGGGAC AAACTGCGGGTCCCGCTGTCCACACCGCTCCTAGCTGCTCCCATAAGCATCAGCGCCTATCATCGGGAAG GACCAAGGATCTTGACCTGGGATGTTCCGGACGGCAGGAATGGGGAGTGAGAAAAATAGGTTGAAGAAAC TTTGTAAAGTTAGTTTAAAGTATTTTGGAGGAAAATTAAAGATTTGTTTGTTGCCCGGCAAAAAAAAAAA AAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5366450 using vector (pCMV-SPORT6) specific primers. Forward Primer - name:RZPD T7, sequence:TAATACGACTCACTATAGGG; Reverse Primer - name:RZPD sp6, sequence:ATTTAGGTGACACTATAG. Anti-sense probe was then transcribed from the PCR amplified template using Sp6 polymerase. EMAGE Editor's Note: the probe sequence indicated here was given by the EURExpress Consortium and has been checked using a computational method whereby a BLAST comparison was made against the full insert sequence of IMAGE:5366450 which was retrieved directly from NCBI.
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:11000 same embryo
	EMAGE:10997 same embryo
	EMAGE:10996 same embryo
	EMAGE:10999 same embryo
	EMAGE:11001 same embryo
	EurExpress:euxassay_001277 same experiment
	MGI:4827642 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