EMAGE mouse gene expression spatial database

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EMAGE:3835

Gpc3 glypican 3 ( MGI:104903)
TS17 (10.5 dpc)
in situ hybridisation

Data Images


Raw signal output, as movie.	All sections along the X-axis, as movie.	All sections along the Y-axis, as movie.	All sections along the Z-axis, as movie.	Photograph prior to 3D imaging.

Sample morphology following 3D imaging, as movie

View 3D opt image:
Download 3D images in woolz format
Expression pattern clarity:
Find spatially similar wholemount expression patterns:

Notes:

This is a traditionally produced wholemount in situ hybridisation stained using alkaline phosphatase + NBT/BCIP. It has been imaged using Optical Projection Tomography. The visible channel depicting the signal has been false-coloured green and the fluorescence channel depicting autofluorescence has been false-coloured red.

Expression Pattern Description

Spatial Annotation:

Annotation colour key:

	strong
	moderate
	weak
	possible
	not detected

wholemount mapping

Download individual expression domains:

3835_wholemount_strong_3D_1.wlz

3835_wholemount_moderate_3D_1.wlz

3835_wholemount_weak_3D_1.wlz

3835_wholemount_possible_3D_1.wlz

3835_wholemount_notDetected_3D_1.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:3835_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

axial skeleton

moderate

forelimb bud

strong

1st branchial arch

strong

Strong expression in the maxilliary prominence. Weaker expression in the mandible

2nd branchial arch

moderate

3rd branchial arch

possible

hindlimb bud

moderate

Annotation Validation:

EMAGE Editor

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	Gpc3_T7
Entity Detected:	Gpc3, glypican 3 ( MGI:104903)
Sequence:	sense strand is shown >Gpc3_T7 TTTGTCAAAGAAATCCATGCAGAGAAAGAGAAAAGAGGGAAACATGACAACCATGTTCCAACAGTCAAAT GTAAGAAAATAATTTGGCACAACTTGAAGGTTTTTTTTTTCTTTGCAAAAAGACAATCTATCCTACCACT AAAATTTACCATCCTCATAAAGATACCATTTGATTTTCGAAAACATAACACGCGGTTAGTCTCCTACTTA ATGGTGGTGGGAGGAGGCATAAAAGATAAAAAAAAAAAAAAAAAGAAAAAAAAAAGAAGGTGGCTCCCTT TCTGTAGGGACCACAGGTGCTGCAGGGCAGCACAGGCACTGGACGCTGGCAAGTCAGTGCACCAGGAAAA AAAAGCACGCCACATAGATGGCCACACTGATGAGGATCTTCAGTGGGGACGGCATGTTCCCCACGCTGTG AGAGGTGGTGATCTCGTTGTCCTTCTGATTTCCATGCTGCTTGTTCCCCGGAGCATCGTCCACATCCAGA TCATAGGCC
	nt 48517079 - nt 48517577 of NC_000086.5
Notes:	These primers were used to generate the in vitro transcription template by PCR of mouse whole genomic DNA. They contain T7 or T3 promotor sequences and amplify a region corresponding to portions of the ORF and the 3'UTR. Forward primer: 5 AATTAACCCTCACTAAAGGGGCCTATGATCTGGATGTGG (T3 Sense) Reverse primer: 5 TAATACGACTCACTATAGGTTTGTCAAAGAAATCCATGCAG (T7 Antisense)
Chemistry:	RNA
Strand:	antisense
Label:	digoxigenin

Specimen

Organism:	mouse
Strain:	CD1
Age:	10.5 dpc
Theiler Stage:	TS17
Mutations:	none (wild-type)
Preparation:	opt

Procedures

Fixation:	4% paraformaldehyde
Embedding:	agarose
Staining procedure:	alkaline phosphatase + NBT/BCIP

General Information

Authors:	Jacqueline Ramsay, David R FitzPatrick
Principal investigator:	David R FitzPatrick, Medical Research Council, Human Genetics Unit MRC Western General Hospital Crewe Road, Edinburgh, Scotland EH4 2XU
Submitted by:	Jacqueline Ramsay, Medical Research Council, Human Genetics Unit MRC Western General Hospital Crewe Road, Edinburgh, Scotland EH4 2XU
Experiment type:	screen
Links:	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