EMAGE mouse gene expression spatial database

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EMAGE:20071

Shroom3 shroom family member 3 ( MGI:1351655)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_012216. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_012216_01	euxassay_012216_02	euxassay_012216_03	euxassay_012216_04

euxassay_012216_05	euxassay_012216_06	euxassay_012216_07	euxassay_012216_08	euxassay_012216_09

euxassay_012216_10	euxassay_012216_11	euxassay_012216_12	euxassay_012216_13	euxassay_012216_14

euxassay_012216_15	euxassay_012216_16	euxassay_012216_17	euxassay_012216_18	euxassay_012216_19

euxassay_012216_20	euxassay_012216_21	euxassay_012216_22

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:

20071_wholemount_strong.wlz

20071_wholemount_moderate.wlz

20071_wholemount_weak.wlz

20071_wholemount_possible.wlz

20071_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20071_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

vertebral axis musculature

weak

regional

weak expression: see section 01 02 03 04 05 06 07 13 14 15 16 17 19 20 21 22

hypothalamus ventricular layer

weak

regional

weak expression: see section 10 11 12

diencephalon lateral wall ventricular layer

weak

regional

weak expression: see section 11 12

telencephalon ventricular layer

weak

regional

weak expression: see section 05 06 09 10 15 16 17

midbrain ventricular layer

weak

regional

weak expression: see section 09 10 11 12 14 15 16

spinal cord ventricular layer

weak

regional

weak expression: see section 11 12 13 14

nasal cavity olfactory epithelium

weak

regional

weak expression: see section 06 07 08 09 10 14 15 16

midgut

weak

regional

weak expression: see section 10 11 12 13 14 15 16

renal cortex

weak

regional

weak expression: see section 07 08 09 10 15 16

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T36851
Entity Detected:	Shroom3, shroom family member 3 ( MGI:1351655)
Sequence:	sense strand is shown >T36851 AGCACTATAGAAACCAGCCGAGTCGTCCGAGTTCCTGCAGCACTTCTGACCCAGACACTCCAGGAAGGAT CTCGCTCCGAATATCGGAGTCAGCCCTTCAACCTTCCCCACCGCCCCGGGGGGACTATGATGACGAAGTG TTCATGAAGGACTTGCACCCCAAGGTTACTTCAAGCCCCACATTTGAAGCTCTTCCCCCACCCCCGCCAC CTTCGCCACCGAGCGAGGAACCTCTAGTGAATGGCACAGATGACTTTCCTCCGCCTCCTCCTCCCCAAGC CCTGTGTGAGGTACTGCTGGATGGTGAGGCATCCACGGAAGCTGGCAGCGGCCCCTGCAGAATTCCCAGG GTGATGGTCACAAGGGAAGGGCACGTGCCTGGGGCAGCCCATTCCGAAGGTAGTCAGATAATGACTGCCA CACCACCCCAAACCTCGGCCAAAGGTTCAGAAGCCGAGTCCAACACGCCTTCCAGCGCGAGCGCCCAGCC TCAGCTCAACGGTTCTCCTGGCAAGCAGCTCTGTCCCAGCCAGACCCGAAACCTCACTTATGAACCTGTC GAGAGAACTCAGGATCTAGGAAAGAAAACTCACGCCGAGCCTCAGAAGACCTCAGAAGATATCCGGACAG AGGCTCTAGCCAAGGAAATTGTCCACCAAGACAAGTCTCTGG
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 74787. Forward Primer - name:074787_F_cDNA_Shrm, sequence:AGCACTATAGAAACCAGCCGAG; Reverse Primer - name:074787_N_SP6_cDNA_Shrm, sequence:CCAGAGACTTGTCTTGGTGGA. 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:20068 same embryo
	EMAGE:20067 same embryo
	EMAGE:20066 same embryo
	EMAGE:20070 same embryo
	EMAGE:20069 same embryo
	EurExpress:euxassay_012216 same experiment
	MGI:4828066 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