EMAGE mouse gene expression spatial database

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EMAGE:12052

Slitrk3 SLIT and NTRK-like family, member 3 ( MGI:2679447)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010980. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010980_01	euxassay_010980_02	euxassay_010980_03	euxassay_010980_04

euxassay_010980_05	euxassay_010980_06	euxassay_010980_07	euxassay_010980_08	euxassay_010980_09

euxassay_010980_10	euxassay_010980_11	euxassay_010980_12	euxassay_010980_13	euxassay_010980_14

euxassay_010980_15	euxassay_010980_16	euxassay_010980_17	euxassay_010980_18	euxassay_010980_19

euxassay_010980_20	euxassay_010980_21	euxassay_010980_22	euxassay_010980_23	euxassay_010980_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:

12052_wholemount_strong.wlz

12052_wholemount_moderate.wlz

12052_wholemount_weak.wlz

12052_wholemount_possible.wlz

12052_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12052_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

thymus primordium

strong

regional

strong expression: see section 12 13 14 15 16

brain

strong

regional

strong 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 24

facial vii ganglion

strong

regional

strong expression: see section 05 06 20 21 22

glossopharyngeal ix ganglion

strong

regional

strong expression: see section 07 19

trigeminal v ganglion

strong

regional

strong expression: see section 04 05 06 07 08 09 10 18 19 20 21 22 23

vagus x ganglion

strong

regional

strong expression: see section 08 09 19

vestibulocochlear viii ganglion

strong

regional

strong expression: see section 05 06 07 08 09 10 17 18 19 20 21 22

spinal cord

strong

regional

strong expression: see section 09 10 11 12 13 14 15 16 17

dorsal root ganglion

strong

regional

strong expression: see section 09 10 11 17 18 19

palatal shelf

strong

regional

strong expression: see section 13 14 15

bladder

strong

regional

strong expression: see section 12 13 14 15 16

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T9313
Entity Detected:	Slitrk3, SLIT and NTRK-like family, member 3 ( MGI:2679447)
Sequence:	sense strand is shown >T9313 CGGGCTCTCGGGAACCGGGGCGCTTGCCACTGAAGGAAGAGCATCAAGATCTTTGATCAGGCCATCCAGG TCCTGGGACACTTGCACAGCCTGCCTGCCATCCGGAGCAAGCACAGAGAGCAGTGGTCCTGAGCCCACGG TCGCCAGCTTCACCGCGCTAGGTGCGCGCTCGGCTCTCCCATCGCTATGCAGCGACCATTTCCCTCTAAG TCTAAAGGTGGACCACTCTGAAAGGATTACAAGCGTGATTTGGTAGCCTTTCTGAAAGTTGGTGGCTGGA AGAGGGGAAGATACTGGGCGACAGAATGACGGATACAATGCAGCCTCGCGGAGAGTTTGCCCCTCCCGCT GAGAAGCCCCTTGGAGCGAACCTCGGAGATCCTGAGCGCTCTGCACCATAGTTTTGTAATCAACCAGGAA TGATGAAGCCAAGCATAGCTGAAATGCTTCACAGAGGAAGAATGCTGTGGATAATTCTTCTAAGCACAAT TGCTCTAGGATGGACTACCCCAATTCCCCTGATAGAGGACTCAGAAGAAATAGATGAGCCCTGTTTTGAT CCATGCTACTGCGAAGTTAAAGAAAGCCTCTTTCACATACATTGTGACAGCAAGGGATTTACAAACATTA GTCAGATTACTGAGTTCTGGTCAAGACCTTTTAAACTGTATCTTCAGAGGAATTCGATGAGAAGACTATA CACAAACAGTTTTCTTCACTTGAATAATGCGGTGTCCATTAACCTTGGGAACAATGCATTGCAGGACATT CAAACTGGAGCATTTAATGGCCTTAAGATTTTAAAGAGACTGTATCTCCATGAGAACAAACTAGATGTCT TCAGAAATGACACCTTCCTTGGCTTAGAAAGTCTGGAATATCTTCAGGCAGATTACAATGTCATTAAACG TATAGAGAGTGGGGCATTTCGGAACCTAAGTAAATTGAGGGTTCTAATCTTAAATGATAATCTCATCCCC GTGCTTCCAACCAATTTATTTAAAGCTGTTTCCTTAACGCATCTGGACCTTCGTGGGAACAGGTTAAAGG TTCTCTTCTACCGTGGGATGCTGGATCACATTGGCAGAAGCCTGATGGAGCTCCAGCTAGAAGAGAATCC TTGGAACTGTACCTGTGAGATAGTACAGCTGAAGAGTTGGCTGGAGCGAATACCTTACACAGCCCTGGTG GGAGACATTACCTGTGAGACACCTTTCCATTTCCATGGGAAGGATCTCCGTGAAATCAAGAAGACTGAAC TCTGTCCACTGTTGTCTGACTCTGAGGTGGAGGCCAGTCTGGGGATTCCCCACTTATCTTCAAGCAAGGA GAATGCCTGGCCAACTAAACCTTCCTCTATGTTGTCTTCTGTCCATTTTACTGCTTCATCTGTTGAATAT AAGTCCTCTAATAAGCAACCAAAACCCACCAAACAGCCCAGAACACCGAGACCACCTTCGACATCCCAGG CTTTATATCCTGGTCCAAATCAACCTCCTATTGCCCCCTATCAGACTAGACCACCCATTCCCATTATATG TCCTACTGGGTGTACATGCAATTTGCATATCAATGACCTTGGCTTGACTGTCAACTGCAAAGAAAGAGGA TTTAACAACATCTCTGAACTCCTTCCAAGGCCCTTGAATGCCAAGAAGCTGTACCTGAGCAGCAATCTTA TTCAGAAGATATACCGCTCTGATTTTTGGAATTTTTCTTCTTTGGATCTCTTGCACCTAGGGAACAATCG CATTTCCTACGTCCAGGATGGGGCTTTCATCAACCTGCCCAACCTGAAGAGTCTCTTTCTCAATGGCAAT GATATAGAAAAGCTGACTCCAGGTATGTTCCGAGGTCTGCAGAGCTTGCATTACTTGTACTTCGAATTCA ACGTCATCCGGGAAATCCAACCTGCAGCCTTCAGCCTCATGCCCAACTTGAAGCTGCTATTTCTCAACAA TAACTTGCTGAGGACTCTGCCAACTGATGCCTTTGCAGGTACATCCCTGGCTCGGCTCAACTTGAGGAAG AACTACTTTCTCTACCTGCCAGTGGCTGGTGTCCTTGAACACCTGAATGCCATTGTGCAGATAGATCTCA ACGAGAATCCTTGGGACTGCACTTGCGACTTAGTCCCCTTTAAGCAGTGGATCGAAACCATCAGCTCAGT CAGCGTGGTAGGTGATGTACTCTGTAGGACCCCCGAGAACCTCACCCACCGTGATGTGCGCACTATTGAG CTGGAAGTTTTATGCCCAGAGATGCTGCATATTGCCCAACCTGGACCATCTCCACCCCAGCCTGGAGATT ACCACCCTAACGGGGGACCAACAAGTGCATCACCTTATGAGTTCTCTCCCCCAGGGGGCCCTGTGCCACT TTCTGTGTTGATTCTCAGCCTCTTGGTTCTGTTCTTCTCAGCTGTCTTTGTTGCTGCAGGCCTCTTTGCC TATGTGCTCCGTCGGCGTAGGAAGAAGTTGCCCTTTAGAAGCAAGAGACAAGAAGGTGTGGACCTTACAG GAATCCAGATGCAATGTCACCGGCTGTTTGAGGACAGTGGAGGCAACAGTGGTGGGAGTGGAGGTGGAGG GCGACCAACTCTGTCCTCGCCAGAGAAAGCCCCTCCCGTGGGTCACGTGTACGAGTATATACCCCACCCA GTAACTCAGATGTGTAACAACCCCATCTATAAGCCTCGAGAGGAGGAAGAAGTGGCTGCCTCAGCAGCCC AGGACACAGGAGCTACAGACCGTGGAGGTCCTGGTACACAACCAACAGGAATGGCTGAGGTGCTCTTGGG AAGTGAGCAGTTTGCAGAAACACCCAAGGAGAACCACAGTAACTACAGGACCTTGCTGGAAAAAGAGAAG GAGTGGGCTCTGGCTGTTTCCAACTCTCAACTTAACACCATAGTGACGGTGAACCATCACCACCCTCACC CTCACCACTCGGCAGTTGGTGGGGTTTCAGGGGTAGGTGGAGGGACTGGGGGAGACTTGGCTGGGTTCCG CCACCATGAGAAGAATGGTGGGGTGGTGCTGTTTCCCCCTGGGGGAGGTTGTGGTGGTGGCAGTCTGCTA CTAGACCGTGAGAGGCCACAGCCTGCTCCGTGCACAGTGGGATTTGTGGACTGTCTCTATGGCACAGTGC CCAAATTAAAGGAACTCCATGTCCACCCCCCTGGCATGCAATATCCAGACTTACAGCAGGATGCCAGGCT CAAAGAAACCCTTCTCTTCTCAGCTGGAAAGGGCTTCACAGACCACCAAACCCCCAAAAGTGATTACCTC GACTTAAGGGCCAAACTTCAAACTAAGCCGGATTACCTCGAAGTTCTGGAGAAAACAGCATACAGGTTCT AACCGAAAGAAGAAAATAAATTAGTGGCTTTGTTTTGATTTCCAAAAGAAAAAGGAAAATAAAAAGAAAT ATATCCCCGGCTCCCATTATACTTGTCCCAATAACTACATCCTTACAGTTTCCCCTGCCTAGGACAGAAC TGAAACGCATGATAACTAGAGAATACAAAAGTGTGCTCCCCCTCTCAGATGTGATTTTGAGGAAGGGCCA TACTCAGATCATTAATCAATGAAGTGCCTTCGCAGACTTTTGCCAGCAAATGTTATCATTATTTTTTATA CTGAAACTCGAGACTTTGACTGTGCCATGTGTGAGGTATACTGGGGATCGTTGTATTGATCCTAAATGAG TAAACTTCAATGTGTCTTTTTAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:6844461 using vector (pYX-Asc) specific primers. Forward Primer - name:RZPD T3, sequence:ATTAACCCTCACTAAAGGGA; Reverse Primer - name:RZPD T7, sequence:TAATACGACTCACTATAGGG. Anti-sense probe was then transcribed from the PCR amplified template using T7 polymerase. EMAGE Editor's Note: the probe sequence indicated here was given by the EURExpress Consortium and has been checked using a computational method whereby a BLAST comparison was made against the full insert sequence of IMAGE:6844461 which was retrieved directly from NCBI.
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:12054 same embryo
	EMAGE:12050 same embryo
	EMAGE:12053 same embryo
	EMAGE:12051 same embryo
	EurExpress:euxassay_010980 same experiment
	MGI:4828306 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