EMAGE mouse gene expression spatial database

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EMAGE:8600

Pcdh7 protocadherin 7 ( MGI:1860487)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_009713. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_009713_01	euxassay_009713_02	euxassay_009713_03	euxassay_009713_04

euxassay_009713_05	euxassay_009713_06	euxassay_009713_07	euxassay_009713_08	euxassay_009713_09

euxassay_009713_10	euxassay_009713_11	euxassay_009713_12	euxassay_009713_13	euxassay_009713_14

euxassay_009713_15	euxassay_009713_16	euxassay_009713_17	euxassay_009713_18	euxassay_009713_19

euxassay_009713_20	euxassay_009713_21	euxassay_009713_22	euxassay_009713_23	euxassay_009713_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:

8600_wholemount_strong.wlz

8600_wholemount_moderate.wlz

8600_wholemount_weak.wlz

8600_wholemount_possible.wlz

8600_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:8600_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

mesenchyme

weak

regional

weak expression: see section 01 02 03 04 05 06 07 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24

diencephalon lateral wall mantle layer

moderate

regional

moderate expression: see section 06 07 08 09 10 11 13 14 15 16 17

telencephalon mantle layer

moderate

regional

moderate expression: see section 01 02 03 04 05 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23

olfactory cortex mantle layer

moderate

regional

moderate expression: see section 08 09 10 11 14 15 16

medulla oblongata alar plate mantle layer

moderate

regional

moderate expression: see section 07 08 09 10 11 12 14 15 16 17 18

medulla oblongata basal plate mantle layer

moderate

regional

moderate expression: see section 07 08 09 10 11 12 14 15 16 17 18

rest of cerebellum mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 14 15 16 17 18 19 20 21

pons mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 14 15 16 17 18 19

midbrain mantle layer

moderate

regional

moderate expression: see section 05 06 07 08 09 10 11 14 15 16 17 18 19

trigeminal v ganglion

moderate

spotted

moderate expression: see section 03 04 05 06 07 08 09 17 18 19 20 21 22

vestibulocochlear viii ganglion

moderate

spotted

moderate expression: see section 06 07 08 09 18 19

spinal cord mantle layer

moderate

regional

moderate expression: see section 07 08 09 10 11 12 13 14 15 16

dorsal root ganglion

moderate

spotted

moderate expression: see section 09 10 12 13 14 15 16 17 18 weak expression: see section 01

nasal cavity olfactory epithelium

weak

regional

weak expression: see section 05 06 08 09 10 11 12 15 16

stomach

weak

regional

weak expression: see section 01 02 03 04 05 06

bladder

weak

regional

weak expression: see section 09 10 11 12

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T36748
Entity Detected:	Pcdh7, protocadherin 7 ( MGI:1860487)
Sequence:	sense strand is shown >T36748 ATACCGATCTGTTAATGGTGGGCCTGGCAGTCCCGACCTGGCAAGGCATTACAAATCCAGTTCCCCATTG CCTACTGTCCAGCTTCACCCCCAGTCACCAACTGCAGGGAAAAAACATCAAGCTGTACAAGATCTACCAC CAGCCAACACATTTGTGGGAGCAGGAGACAACATTTCAATTGGATCAGATCACTGCTCCGAGTACAGCTG TCAAACAAGTAACAAGTACAGCAAACAGATGCGTGTACATCCATACATTACGGTGTTTGGCTGAATTCCA CTCTAATATGATGCTCCATTTTGCACCATACTCTGTCATCACCTTGCTTCTACGCCACCTGCTGGAGCCT GCCCTTGGCCGTGGGGTGTCAGCCAATCACTGTTTGTTTTCCTTGTTGTGCATTATGTTTCCAAGCTTTT TCTTACCTATTTAAGGAAAATAAATAGTATGAAAGCAAGTTAAGGTCCAAAGAGGCAGTATTAATACAGG CATGTATTATTCACAGATGTCTACAGTTCTGTTCCCAAAGAGATGGCTAGCAACCATTAACACTTGATAG GAAAAGCATTCGGAAGAAAACCCCCAAACATATTTTGGTAATAATAATAATTCTAAGATTTTGGCTTTAT GTGCAAAGGGAAA
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 100234. Forward Primer - name:100234_F_cDNA_Pcdh7, sequence:ATACCGATCTGTTAATGGTGGG; Reverse Primer - name:100234_N_SP6_cDNA_Pcdh7, sequence:TTTCCCTTTGCACATAAAGCC. 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:8605 same embryo
	EMAGE:8602 same embryo
	EMAGE:8604 same embryo
	EMAGE:8603 same embryo
	EMAGE:8601 same embryo
	EurExpress:euxassay_009713 same experiment
	MGI:4827080 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