EMAGE mouse gene expression spatial database

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EMAGE:15313

Trim9 tripartite motif-containing 9 ( MGI:2137354)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010509. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010509_01	euxassay_010509_02	euxassay_010509_03	euxassay_010509_04

euxassay_010509_05	euxassay_010509_06	euxassay_010509_07	euxassay_010509_08	euxassay_010509_09

euxassay_010509_10	euxassay_010509_11	euxassay_010509_12	euxassay_010509_13	euxassay_010509_14

euxassay_010509_15	euxassay_010509_16	euxassay_010509_17	euxassay_010509_18	euxassay_010509_19

euxassay_010509_20	euxassay_010509_21	euxassay_010509_22	euxassay_010509_23	euxassay_010509_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:

15313_wholemount_strong.wlz

15313_wholemount_moderate.wlz

15313_wholemount_weak.wlz

15313_wholemount_possible.wlz

15313_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:15313_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 07 08 09 10 11 12 13 14 15 16 17 18

thalamus mantle layer

strong

regional

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

cerebral cortex mantle layer

strong

regional

strong expression: see section 03 04 05 06 07 08 09 10 11 12 18 19 20 21 22 23 moderate expression: see section 02 13 15 16 17

telencephalon mantle layer

moderate

regional

moderate expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23

medulla oblongata alar plate mantle layer

moderate

regional

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

medulla oblongata basal plate mantle layer

moderate

regional

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

medulla oblongata basal plate ventricular layer

strong

regional

strong expression: see section 09 10 11 12 13 14

rest of cerebellum mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20

pons mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20

pons ventricular layer

strong

regional

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

midbrain mantle layer

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18

spinal cord mantle layer

moderate

regional

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

spinal cord ventricular layer

strong

regional

strong expression: see section 10 11

lower jaw molar

moderate

regional

moderate expression: see section 08 19

upper jaw molar

moderate

regional

moderate expression: see section 08 19

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T30552
Entity Detected:	Trim9, tripartite motif-containing 9 ( MGI:2137354)
Sequence:	sense strand is shown >T30552 ACCAACAGAGCAAAGCCGCGGCCCTCAAGTGCCAGCTCTGCGAGAAGGCGCCCAAGGAAGCCACGGTCAT GTGTGAACAGTGCGATGTCTTCTACTGCGACCCTTGCCGTCTGCGCTGCCACCCGCCCCGGGGTCCCCTA GCCAAACACCGTCTGGTGCCCCCGGCCCAGGGCCGCGTCAGCCGGCGGCTGAGCCCGCGCAAGGTCTCCA CCTGCACAGACCACGAGCTGGAGAACCACAGCATGTACTGCGTGCAATGCAAGATGCCCGTTTGCTACCA GTGCCTAGAGGAGGGCAAACACTCCAGCCACGAAGTCAAGGCTTTGGGGGCTATGTGGAAATTGCACAAG AGCCAGCTCTCCCAGGCCCTGAATGGATTGTCGGACAGGGCCAAAGAAGCCAAGGAGTTCCTGGTGCAGC TCCGCACCATGGTACAACAGATCCAGGAAAACAGTGTGGAGTTTGAGGCCTGCCTGGTGGCCCAGTGTGA TGCGCTCATCGATGCCCTAAACCGAAGGAAGGCTCAGCTGCTGGCCCGGGTCAACAAGGAGCATGAACAC AAGCTGAAGGTGGTTCGGGACCAGATCTCTCACTGCACGGTGAAGCTGCGTCAGACCACGGGCCTCATGG AGTACTGCTTGGAAGTGATTAAGGAGAACGACCCCAGTGGCTTTTTGCAGATTTCAGATGCTCTCATAAG GCGAGTTCACTTAACTGAGGACCAGTGGGGGAAGGGCACCCTCACTCCCAGGATGACCACAGACTTTGAT CTGAGCCTGGACAACAGCCCTCTGCTGCAGTCTATTCACCAACTGGACTTCGTGCAAGTGAAAGCCTCCT CTCCAGTCCCAGCAACCCCCATCCTACAGCTGGAGGAGTGTTGCACCCACAACAACAGTGCTACGCTGTC CTGGAAACAGCCCCCTCTG
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from the plasmid IMAGE:5684877), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 59075. Forward Primer - name:059075_F_IRAV111_f04_Trim9, sequence:ACCAACAGAGCAAAGCCG; Reverse Primer - name:059075_R_SP6_IRAV111_f04_Trim9, sequence:ACAGAGGGGGCTGTTTCC. 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:15316 same embryo
	EMAGE:15314 same embryo
	EMAGE:15312 same embryo
	EMAGE:15315 same embryo
	EMAGE:15311 same embryo
	EurExpress:euxassay_010509 same experiment
	MGI:4828921 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