EMAGE mouse gene expression spatial database

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EMAGE:20594

Mid1 midline 1 ( MGI:1100537)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_013835. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_013835_01	euxassay_013835_02	euxassay_013835_03	euxassay_013835_04

euxassay_013835_05	euxassay_013835_06	euxassay_013835_07	euxassay_013835_08	euxassay_013835_09

euxassay_013835_10	euxassay_013835_11	euxassay_013835_12	euxassay_013835_13	euxassay_013835_14

euxassay_013835_15	euxassay_013835_16	euxassay_013835_17	euxassay_013835_18	euxassay_013835_19

euxassay_013835_20	euxassay_013835_21

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:

20594_wholemount_strong.wlz

20594_wholemount_moderate.wlz

20594_wholemount_weak.wlz

20594_wholemount_possible.wlz

20594_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20594_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 ventricular layer

moderate

regional

moderate expression: see section 11 12

diencephalon lateral wall marginal layer

moderate

regional

moderate expression: see section 11

diencephalon lateral wall ventricular layer

moderate

regional

moderate expression: see section 12

olfactory cortex ventricular layer

strong

homogeneous

strong expression: see section 13 14

telencephalon ventricular layer

strong

homogeneous

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

medulla oblongata basal plate ventricular layer

weak

regional

weak expression: see section 12

pons ventricular layer

moderate

regional

moderate expression: see section 11 weak expression: see section 12

midbrain ventricular layer

strong

regional

strong expression: see section 09 10 11 12 13 14 moderate expression: see section 08 19

neural retina

moderate

regional

moderate expression: see section 01 02 03 16 17 21

metanephros

weak

regional

weak expression: see section 05 06 07 08 09 14 18 19 20

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T38227
Entity Detected:	Mid1, midline 1 ( MGI:1100537)
Sequence:	sense strand is shown >T38227 TGGCACCAAGTATATCTTCACGGTGAAGGCCATCAACCAGGCGGGCAGCCGTAGCAGCGAGCCCGGAAAG CTGAAGACCAACAGTCAGCCGTTTAGACTGGATCCCAAATCGGCTCATCGCAAGCTGAAGGTGTCCCACG ACAACCTGACTGTCGAGCGCGACGACTCGTCCTCTAAGAAGAGTCACGCGCCGGAGCGCTTCGCTGGTCA GGGGAGCTACGGAGTGGCTGGCAACGTGTTCATCGACAGCGGCCGTCACTACTGGGAAGTGGTCACCAGC GGAAGCACATGGTACGCCATCGGCCTGGCGTACAGATCGGCGCCGAAACACGAGTGGATCGGGAAGAACG CGGCGTCCTGGGCCCTCTGCCGCTGCCACAACCACTGGGCGGTGCGACACGACGGCAAGGAGACCCCCAT CGCGCCGGCCCCTCACCTCAGGCGCGTCGGCGTCCTGCTGGACTACGACAACGGCTCCATCGCCTTCTAC GACGCTCTGAGCTCCGTCCACCTCCACACCTTCCACGCGGCGCTCGCGCAGCCCGTGTGCCCCACCTTCA CCGTGTGGAACAAGTGTCTGACCATCGTCACGGGTCTGCCCATCCCGGACCATCTGGACTGTACGGAGCA GCGACCTTGAGGGACCCGGCCCCACAGCGGCCCCGGGGAGGGACACAGGTGGAGGCCGCTGTTTATGGGG TCGAGAAACTCAGGCTTCCAGAGCGTCGTGACATCTTCCCGCAATCTGT
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 147205. Forward Primer - name:147205_F_cDNA_Mid1, sequence:TGGCACCAAGTATATCTTCACG; Reverse Primer - name:147205_N_SP6_cDNA_Mid1, sequence:ACAGATTGCGGGAAGATGTCA. 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:20597 same embryo
	EMAGE:20596 same embryo
	EMAGE:20595 same embryo
	EurExpress:euxassay_013835 same experiment
	MGI:4826201 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