EMAGE mouse gene expression spatial database

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EMAGE:8790

Trak1 trafficking protein, kinesin binding 1 ( MGI:1914345)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_009992. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_009992_01	euxassay_009992_02	euxassay_009992_03	euxassay_009992_04

euxassay_009992_05	euxassay_009992_06	euxassay_009992_07	euxassay_009992_08	euxassay_009992_09

euxassay_009992_10	euxassay_009992_11	euxassay_009992_12	euxassay_009992_13	euxassay_009992_14

euxassay_009992_15	euxassay_009992_16	euxassay_009992_17	euxassay_009992_18	euxassay_009992_19

euxassay_009992_20	euxassay_009992_21	euxassay_009992_22	euxassay_009992_23	euxassay_009992_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:

8790_wholemount_strong.wlz

8790_wholemount_moderate.wlz

8790_wholemount_weak.wlz

8790_wholemount_possible.wlz

8790_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:8790_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

submandibular gland primordium

weak

regional

weak expression: see section 07 09 10 21

diencephalon lateral wall ventricular layer

weak

regional

weak expression: see section 11 12 13 14 15

cerebral cortex mantle layer

weak

regional

weak expression: see section 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24

medulla oblongata basal plate ventricular layer

weak

regional

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

pons ventricular layer

weak

regional

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

midbrain ventricular layer

weak

regional

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

facial vii ganglion

weak

regional

weak expression: see section 05 06 21

glossopharyngeal ix ganglion

weak

regional

weak expression: see section 07 19

trigeminal v ganglion

weak

regional

weak expression: see section 04 05 06 07 08 09 18 19 20 21 22 23

vagus x ganglion

weak

regional

weak expression: see section 08 18 19

spinal cord ventricular layer

weak

regional

weak expression: see section 12 13 14

dorsal root ganglion

weak

regional

weak expression: see section 09 10 11 13 14 17 18

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T31739
Entity Detected:	Trak1, trafficking protein, kinesin binding 1 ( MGI:1914345)
Sequence:	sense strand is shown >T31739 TGTGCAACAGCACCAACCTTCCAGAAGTTGAGATCATTAGCCTGCTGGAGGAACAGCTGCCCCATTACAA GCTAAGAGCGGACACCATCTATGGTTACGACCACGATGACTGGCTGCATACGCCCCTCATCTCCCCAGAT GCCAACATCGACCTCACAACTGAGCAGATCGAAGAGACGCTGAAATACTTCCTTCTATGTGCCGAAAGAG TTGGCCAGATGACTAAAACATACAATGACATTGATGCTGTCACGAGGCTTCTTGAGGAGAAAGAGCGGGA TTTGGAGCTGGCTGCGAGGATCGGTCAGTCATTGTTGAAGAAGAACAAGACCCTAACTGAGAGGAATGAA CTGCTGGAAGAGCAGGTGGAGCACATCCGGGAGGAGGTGTCTCAGCTCCGACATGAGCTGTCCATGAAAG ACGAGCTGCTTCAATTCTACACCAGTGCCGCTGAGGAGAGCGAGCCTGAGTCCGTCTGCTCAACCCCGCT GAAGAGGAA
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:6439375), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 58221. Forward Primer - name:058221_F_IRAV91_f01_2310001H13Rik, sequence:TGTGCAACAGCACCAACC; Reverse Primer - name:058221_R_SP6_IRAV91_f01_2310001H13Rik, sequence:GTTCCTCTTCAGCGGGGT. 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:8791 same embryo
	EMAGE:8789 same embryo
	EMAGE:8788 same embryo
	EMAGE:8792 same embryo
	EMAGE:8787 same embryo
	EurExpress:euxassay_009992 same experiment
	MGI:4828890 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