EMAGE mouse gene expression spatial database

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EMAGE:14658

Cntn6 contactin 6 ( MGI:1858223)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_005520. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_005520_01	euxassay_005520_02	euxassay_005520_03	euxassay_005520_04

euxassay_005520_05	euxassay_005520_06	euxassay_005520_07	euxassay_005520_08	euxassay_005520_09

euxassay_005520_10	euxassay_005520_11	euxassay_005520_12	euxassay_005520_13	euxassay_005520_14

euxassay_005520_15	euxassay_005520_16	euxassay_005520_17	euxassay_005520_18	euxassay_005520_19

euxassay_005520_20	euxassay_005520_21	euxassay_005520_22

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:

14658_wholemount_strong.wlz

14658_wholemount_moderate.wlz

14658_wholemount_weak.wlz

14658_wholemount_possible.wlz

14658_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:14658_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 04 05 06 07 08 09 10 11 12 13 14 15 16

corpus striatum

moderate

single cell

moderate expression: see section 01 02 03 04 16 21 22

telencephalon mantle layer

moderate

single cell

moderate expression: see section 02 03 04 16 17 18 19 20 21 22

olfactory cortex marginal layer

moderate

single cell

moderate expression: see section 12 13 14 16 17 18

medulla oblongata basal plate mantle layer

moderate

single cell

moderate expression: see section 02 03 04 05 06 07 08 09 10 11 12 13

pons mantle layer

moderate

single cell

moderate expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13

midbrain mantle layer

moderate

regional

moderate expression: see section 03 04 08 09 10 11 12

dorsal grey horn

moderate

single cell

moderate expression: see section 02 03 04 05 06 07 08 09

ventral grey horn

moderate

single cell

moderate expression: see section 02 03 04 05 06 07 08 09

lower jaw incisor

strong

regional

strong expression: see section 09 10 11

lower jaw molar

strong

regional

strong expression: see section 08 09 17 18 19 20 21

upper jaw incisor

strong

regional

strong expression: see section 09 10 11

upper jaw molar

strong

regional

strong expression: see section 08 09 17 18 19 20 21 moderate expression: see section 22

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T9603
Entity Detected:	Cntn6, contactin 6 ( MGI:1858223)
Sequence:	sense strand is shown >T9603 GGAATGCAGCAGGAGAGGAGCGTATTTCATGCTTAAGACCAGAGAGGAGCCACGCAATACTCAGTGGATA AAAGGCTTGCAGTCCCAGCTGGGAAAAAGAGTCCCATTATCTCCCAGCTGCATAGACATTCCATACGGCT TGGTTCTGCCTGGATGCACAGCATGCCTGACTGAGGACTCCAGACAGAGTTCTGCAGAAAAATTGTAAAG ATCCCGAGACATTTCCCTGATAGATTGCTAACAAACTGACTAGAAGATACAATCTTCTTTCCTGCTGATT GCATGGGAGAAATTTTTGACCTTCGAACGTGGAGATGAGGTTGCTATGGAAACTGGTAATTCTGCTGCCA CTCATAAACTCTTGTGCAGGTGAGGGTCGTTTCAGCCGTCCTATTTTTATCCAGGAGCCACAAGATGTCA TTTTTCCTTTGGATTTATCTAGATCTGAAATTATTCTGACTTGTACTGCAAATGGATACCCTTCTCCCCA TTACAGGTGGAAACAGAATGGTACAGATATTGACTTCGGCATGACTTATCACTATAGGTTGGATGGAGGC AGTTTGGCCATCAGCAGCCCCAGAACAGATCAAGATATTGGCATATACCAGTGTCTGGCCACCAATCCTG TGGGCACCATTCTGAGTAGAAAAGCCAAGCTACAGTTTGCATATATTGAAGACTTTGAAACCAAAACCAG AAGCACAGTATCTGTCCGAGAAGGTCAAGGAGTGGTACTACTCTGTGGCCCACCACCACATTTTGGAGAA TTATCATATGCCTGGACCTTCAATGATAGCCCTTTGTATGTTCAAGAGGACAAGCGAAGATTTGTATCTC AAGACACAGGGAACTTGTACTTTGCCAAAGTAGAACCATCTGATGTGGGCAATTATACTTGCTTTGTCAC AAACAAAGAGGCCCATAGAAGTGTCCAAGGTCCACCTACGCCTTTAGTGCTGCGCACTGATGGTGTCATG GGGGAATATGAGCCAAAGATTGAAGTGCGTTTTCCTGAAACAATACAAGCTGCAAAGGATTCATCTATAA AACTGGAATGCTTTGCCCTTGGAAATCCAGTCCCTGATATTAGTTGGAAAAGGTTGGATGGAAGCCCGAT GCCAGGGAAAATCAAGTACAGCAAATCCCAAGCTATCCTTGAAATCCCCAAGTTCCAACAAGAGGATGAA GGCTTCTATGAATGCATCGCAGGTAACCTTCGAGGAAGAAACCTTGCAAAGGGTCAACTAATTTTCTATG CTCCCCCAGAATGGGAACAGAAAATCCAAAACACATACCTTTCTATCTATGACAGCTTGTTTTGGGAATG CAAAGCTAGTGGAAATCCAAATCCTTCGTACACGTGGCTAAAGAATGGTCAACGTCTCAACACAGAAGAA AGAATTCAGATTGAAAATGGGACTCTTATCATCACCATGCTGAACATTTCAGACTCTGGGATCTACCAGT GTGCTGCAGAAAACAAATATCAGACAATTTATGCAAATGCAGAATTGAGAGTTTTAGCCTCAGCTCCAGA TTTCTCCAAAAATCCCATTAAAAAAATTTCAGTTGTTCAAGTTGGTGGTGATATTTCTATTGAATGCAAA CCAAATGCTTTCCCCAAAGCATCGATTTCCTGGAAAAGAGGAACAGAGAACCTGAAACAAAGTAAAAGAG TTCTTTTCTTGGAGGATGGCAGCCTTAAGATATGCAATGTTACCAGAGCAGATGCTGGGTCTTACACCTG TGTAGCTACAAATCAATTTGGCAATGGGAAAAGCAGTGGAGGTCTCGTCGTGAAAGAGAGAACGATCATT ACAGTACCACCATCTAAAATGGATGTTACAGTTGGAGAGAGCATCGTCTTACCCTGCCAAGTGTCTCATG ACCCCACCATGGAAGTTCTATTTGTTTGGTACTTTAATGGAGATATTATAGATTTAAAGAAAGGAGTAGC CCATTTTGAACGAATTGGGGGAGAATCTGTTGGGGATTTGATGATAAGGAATATTCAATTAGGCCATTCG GGAAAATATCTATGCACAGTACAAACAACACTAGAACGCTTGTCTGCTGTAGCTGATATCATTGTGAGAG GTCCCCCAGGGCCCCCAGAGGATGTAAAAGTGGAGCACATCTCTAGTACGACCTCCCAGCTCAGCTGGAG ACCAGGTCCTGATAATAACAGCCCCATTCAAATTTTTACTATTCAAACTCGGACACCCTTTTCTGTGGGC TGGCAAGCGGTTGCTACAGTCCCTGAAATTCTCAATGGACAGACATACAATGCAACAGTCGTTGGTTTGA GTCCTTGGGTGGAATACGAATTTCGTGTTGTTGCTGGGAACAACATTGGAATTGGAGAGCCAAGCAAACC ATCAGAGCTGCTGAGAACCAAAGCATCAGTCCCCAATGTGGCACCAGGAAATATCAATGGAGGCGGTGGA AGCAGATCGGAACTTGTCATTACGTGGGAGGCCATTCCTGAAGAACTACAGAATGGAGAGGGGTTTGGAT ATATCGTCATGTTTCGGCCAGTAGGCACAACCGCCTGGATGAAAGAAAGGGTGGCTCTTGTAGAATCATC CAAGTTCATCTATAGAAATGAAAGCATCATGCCTCTGTCTCCCTTTGAAGTCAAAGTGGGAGTGTACAAT AATGAAGGAGAGGGATCCCTGAGTACTGTGACCATTGTCTACTCTGGGGAAGATGAGCCTCAGCTGGCCC CAAGAGGAACTTCTGTCCAGAGTTTTTCTGCTTCTGAAATGGAGGTTTCCTGGAATGCTATTGCTTGGAA TAGAAACACTGGAAGAGTGCTAGGCTATGAGGTCTTATACTGGACAGACAACTCCAAAGAATCTATGATT GGTAAAATTAGAGTCAGTGGAAATGTCACAACCAAGAACATCACAGGACTAAGAGCTAATACGATTTACT TTGCCTCTGTGAGAGCCTATAACACTGCAGGGACTGGACCCTCAAGTCTGCCAGTTAATGTCACCACCAA AAAGTCCCCTCCTAGCCAACCACCAGCAAACATTGCCTGGAAGCTGTCAAATTCTAAATTATGCTTGAAC TGGGAGCATGTAAAAACCATGGAAAATGAGTCTGAAGTGCTGGGCTACAAGATCCTCTATCGGCAGAACC GACAGAGTAAAACTCATATTTTGGAAACAAATAATACATCTGCTGAACTCCTGGTTCCATTTGAAGAAGA CTATTTGATTGAAATCAGAACAGTCAGTGATGGTGGAGATGGAAGCAGCAGTGAGGAAATCAGAATTCCA AAAATGTCAAGTTTGAGTTCCACAGGAGTTCAGATCTCGAAGCCCAGCACCCAGTCCCTGTCAATGGTTG GGGTTTTTTACTGTTTTGCTATTCACCCACTTTCGAGATGAACCAATCCATGGATCTTTGGGAATTTTCT GAGAGCAAACCATTCTGTAAATCCATTCTCCAGCCTCTATCACAAGACATATTCTTAATACAGACTTGTT TGGAAAGAAGAAAATGTATATTACTAAGCTCTTGTAAATATCTGTGGTACATTAATAAAACAGTTTTAAA CACTTTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:30649661 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:30649661 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:14656 same embryo
	EMAGE:14655 same embryo
	EMAGE:14657 same embryo
	EMAGE:14654 same embryo
	EMAGE:14659 same embryo
	EurExpress:euxassay_005520 same experiment
	MGI:4823964 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