EMAGE mouse gene expression spatial database

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EMAGE:8045

Col6a5 collagen, type VI, alpha 5 ( MGI:3648134)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_015988. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_015988_01	euxassay_015988_02	euxassay_015988_03	euxassay_015988_04

euxassay_015988_05	euxassay_015988_06	euxassay_015988_07	euxassay_015988_08	euxassay_015988_09

euxassay_015988_10	euxassay_015988_11	euxassay_015988_12	euxassay_015988_13	euxassay_015988_14

euxassay_015988_15	euxassay_015988_16	euxassay_015988_17	euxassay_015988_18	euxassay_015988_19

euxassay_015988_20	euxassay_015988_21	euxassay_015988_22	euxassay_015988_23	euxassay_015988_24

euxassay_015988_25

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:

8045_wholemount_strong.wlz

8045_wholemount_moderate.wlz

8045_wholemount_weak.wlz

8045_wholemount_possible.wlz

8045_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:8045_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 musculature

strong

regional

strong expression: see section 01 23 moderate expression: see section 02 24 25

esophagus

strong

regional

strong expression: see section 11 12 13

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T39606
Entity Detected:	Col6a5, collagen, type VI, alpha 5 ( MGI:3648134)
Sequence:	sense strand is shown >T39606 ATGCTTCTCAACGAGTAGGAGGACGTAACGAGTTTAAGGAAGTGAGAACTTTGATAACGTCAGTACTGGA TTACTTTCACATTGCCCCAGCTCCACTGACCTCTGTCTTAGGAGACAGAGTGGCTGTCCTGACCTACTCT CCCCCAGGCTATCTGCCAAACACTGAAGAGTGCCCAGTCTACCTGGAATTCGATTTGGTCACTTACAACA CTGTACATCAAATGAAGCATCATCTCCAAGAGTCTCTTCAGCAGCTCAATGGTGATGTTTTTATTGGGCA TGCCCTTCAGTGGACAGTTGACAATGTCTTTGTAGGAACCCCCAATCTGAGGAAAAACAAAGTTATCTTT ATAGTAACTGCAGGTGAAACCAACCCTTTAGACAAAGAAGTTTTAAGGAATGCATCTCTGAGAGCCAAGT GCCAAGGCTACTCCATATTTGTATTTTCCTTTGGTCCGATACACAATGACATGGAGTTAGAAGAATTAGC AAGCCACCCTCTGGATCATCACTTAGTCCGGCTTGGCCGGGTACACAGGCCAGATTTGGACTATGTCATC AAGTTCATCAAGCCATTTGTTCATTCGATCAGACGTGCTATCAACAAATATCCCGGCAGAGACCTGCAAG CCAAGTGTGATAATCTCACCTTCCCTGGCC
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 82206. Forward Primer - name:082206_F_cDNA_LOC245027, sequence:ATGCTTCTCAACGAGTAGGAGG; Reverse Primer - name:082206_N_SP6_cDNA_LOC245027, sequence:GGCCAGGGAAGGTGAGATTAT. 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:8047 same embryo
	EMAGE:8043 same embryo
	EMAGE:8042 same embryo
	EMAGE:8044 same embryo
	EMAGE:8046 same embryo
	EurExpress:euxassay_015988 same experiment
	MGI:4825118 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