EMAGE mouse gene expression spatial database

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EMAGE:8921

Gzmn granzyme N ( MGI:2675494)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_012855. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_012855_01	euxassay_012855_02	euxassay_012855_03	euxassay_012855_04

euxassay_012855_05	euxassay_012855_06	euxassay_012855_07	euxassay_012855_08	euxassay_012855_09

euxassay_012855_10	euxassay_012855_11	euxassay_012855_12	euxassay_012855_13	euxassay_012855_14

euxassay_012855_15	euxassay_012855_16	euxassay_012855_17	euxassay_012855_18	euxassay_012855_19

euxassay_012855_20	euxassay_012855_21	euxassay_012855_22	euxassay_012855_23

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:

8921_wholemount_strong.wlz

8921_wholemount_moderate.wlz

8921_wholemount_weak.wlz

8921_wholemount_possible.wlz

8921_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:8921_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

diencephalon lateral wall mantle layer

moderate

single cell

moderate expression: see section 06 07 08 09 10 12 13 14 15 16

cerebral cortex marginal layer

moderate

regional

moderate expression: see section 02 03 05 06 07 17 18 19 20 21 22 weak expression: see section 01 08 09 10 11 12 14 15 16

medulla oblongata alar plate mantle layer

moderate

single cell

moderate expression: see section 07 11 12 13 14 15

medulla oblongata basal plate mantle layer

moderate

single cell

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15

rest of cerebellum mantle layer

moderate

single cell

moderate expression: see section 03 04 05 06 07 10 11 12 13 14 15 16

pons mantle layer

moderate

single cell

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15 16

midbrain mantle layer

moderate

single cell

moderate expression: see section 03 04 05 06 07 08 09 10 11 12 13 14 15 16

facial vii ganglion

weak

regional

weak expression: see section 03 04 17 18

glossopharyngeal ix ganglion

weak

regional

weak expression: see section 04 14 15 16

trigeminal v ganglion

moderate

regional

moderate expression: see section 01 weak expression: see section 02 03 04 05 06 07 15 16 17 18 20

vagus x ganglion

weak

regional

weak expression: see section 05 14

ventral grey horn

moderate

regional

moderate expression: see section 06 08 12 weak expression: see section 07 09 10 11

dorsal root ganglion

weak

regional

weak expression: see section 03 04 05 06 07 12 13 14 15

neural retina

weak

regional

weak expression: see section 01 02 22 23

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T38506
Entity Detected:	Gzmn, granzyme N ( MGI:2675494)
Sequence:	sense strand is shown >T38506 CAAGACTACTTTGTGCTGACGGCTGCTCACTGCATTGGAAGCTCAATGACAGTCACACTGGGGGCCCACA ACCTCCGTGCACAGGAGGAGACTCAGCAGATTATTCCTGTGAATAAAGCTCTTCCCCACCCAGACTATAA TCCTCTGGATCACACCAATGACATCATGCTATTAAAGCTGGAGAGTAAGGCCAAGGGGACTAGAGATGTG AGGCCCCTCAAGTTGCCTGGGCCCAAAGACAAGGTGAATCCAGGGGATGTGTGCAGTGTGGCTGGCTGGG GGAAAACGTCCATCAATACCACTGAAGGATCTGCTCTCTTAGAAGAGGCTGAATTGATCATCCAGGAGAA CAAGGAATGCAAAAAACAATTCCGTCACTATTCCAAAATCACAG
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 150146. Forward Primer - name:150146_F_cDNA_Gzmn, sequence:CAAGACTACTTTGTGCTGACGG; Reverse Primer - name:150146_N_SP6_cDNA_Gzmn, sequence:CTGTGATTTTGGAATAGTGACGG. 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:8923 same embryo
	EMAGE:8920 same embryo
	EMAGE:8924 same embryo
	EMAGE:8919 same embryo
	EMAGE:8922 same embryo
	EurExpress:euxassay_012855 same experiment
	MGI:4825296 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