EMAGE mouse gene expression spatial database

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EMAGE:20121

Tnr tenascin R ( MGI:99516)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_012507. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_012507_01	euxassay_012507_02	euxassay_012507_03	euxassay_012507_04

euxassay_012507_05	euxassay_012507_06	euxassay_012507_07	euxassay_012507_08	euxassay_012507_09

euxassay_012507_10	euxassay_012507_11	euxassay_012507_12	euxassay_012507_13	euxassay_012507_14

euxassay_012507_15	euxassay_012507_16	euxassay_012507_17	euxassay_012507_18	euxassay_012507_19

euxassay_012507_20	euxassay_012507_21

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:

20121_wholemount_strong.wlz

20121_wholemount_moderate.wlz

20121_wholemount_weak.wlz

20121_wholemount_possible.wlz

20121_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20121_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

regional

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

cerebral cortex mantle layer

weak

regional

weak expression: see section 01 02 03 04 05 06 08 09 10 18 19 20 21

telencephalon mantle layer

moderate

regional

moderate expression: see section 16 weak expression: see section 01 02 03 04 05 06 08 09 10 11 12 13 14 15 17

olfactory cortex mantle layer

moderate

regional

moderate expression: see section 16 weak expression: see section 10 11 12 15 17 18 19 20 21

medulla oblongata alar plate mantle layer

weak

regional

weak expression: see section 07 08 09 10 11 12 13 14

medulla oblongata basal plate mantle layer

moderate

regional

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

rest of cerebellum mantle layer

moderate

regional

moderate expression: see section 07 08 weak expression: see section 03 05 06 11 12 13 14 15 16 17 18

pons mantle layer

moderate

regional

moderate expression: see section 16 weak expression: see section 05 06 07 08 09 10 11 12 13 14 15 17

tegmentum

moderate

regional

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

ventral grey horn

moderate

regional

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

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T38063
Entity Detected:	Tnr, tenascin R ( MGI:99516)
Sequence:	sense strand is shown >T38063 GTTGCGCCTTTTGATTACTACCGAGTATCGTACCGACCCACCCAAGTGGGACGGCTAGACAGCTCCGTAG TGCCCAACACCGTGACAGAGTTCGCCATCACCAGGCTGTATCCAGCTACTGAATATGAAATAAGCCTCAA CAGTGTACGGGGCAGGGAGGAGAGTGAACGCATCTGCACCCTGGTGCACACAGCCATGGATAGCCCCATG GATTTGATCGCTACCAACATCACACCTACAGAAGCCTTGCTCCAGTGGAAAGCACCCATGGGTGAAGTGG AAAATTATGTCATCGTCCTCACACACTTTGCAATTGCTGGAGAGACCATCCTGGTTGACGGGGTCAGCGA AGAATTCCAGCTTGTAGACTTGCTTCCTAGCACCCACTACACTGTCACTATGTATGCCACCAGTGGGCCT CTCATGAGTGGCACCATTGCCACCAACTTCTCCACCCTCCTGGACCCTCCTGACAACCTGACAGCCAGTG AAGTCACCAGGCAAAGCGCACTGATCTCCTGGCAGCCGCCCAGAGCTGCGATTGAAAACTATGTCTTGAC ATACAAGTCCACCGATGGAAGCCGCAAAGAGCTGATAGTGGATGCTGAGGACACCTGGATC
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 64260. Forward Primer - name:064260_F_cDNA_Tnr, sequence:GTTGCGCCTTTTGATTACTACC; Reverse Primer - name:064260_N_SP6_cDNA_Tnr, sequence:GATCCAGGTGTCCTCAGCATC. 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:20118 same embryo
	EMAGE:20120 same embryo
	EMAGE:20119 same embryo
	EMAGE:20122 same embryo
	EurExpress:euxassay_012507 same experiment
	MGI:4828862 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