EMAGE mouse gene expression spatial database

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EMAGE:19787

Pcdhb9 protocadherin beta 9 ( MGI:2136744)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_006303. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_006303_01	euxassay_006303_02	euxassay_006303_03	euxassay_006303_04

euxassay_006303_05	euxassay_006303_06	euxassay_006303_07	euxassay_006303_08	euxassay_006303_09

euxassay_006303_10	euxassay_006303_11	euxassay_006303_12	euxassay_006303_13	euxassay_006303_14

euxassay_006303_15	euxassay_006303_16	euxassay_006303_17	euxassay_006303_18	euxassay_006303_19

euxassay_006303_20	euxassay_006303_21	euxassay_006303_22	euxassay_006303_23	euxassay_006303_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:

19787_wholemount_strong.wlz

19787_wholemount_moderate.wlz

19787_wholemount_weak.wlz

19787_wholemount_possible.wlz

19787_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:19787_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

telencephalon mantle layer

strong

regional

strong expression: see section 21 22 moderate expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 23 24

medulla oblongata basal plate mantle layer

moderate

regional

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

rest of cerebellum mantle layer

strong

regional

strong expression: see section 21 moderate expression: see section 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 19 20

rest of cerebellum marginal layer

moderate

regional

moderate expression: see section 18

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

midbrain mantle layer

moderate

regional

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

glossopharyngeal ix ganglion

moderate

homogeneous

moderate expression: see section 06 18

trigeminal v ganglion

strong

homogeneous

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

vagus x ganglion

moderate

homogeneous

moderate expression: see section 07 18

vestibulocochlear viii ganglion

moderate

homogeneous

moderate expression: see section 07

trigeminal v nerve

moderate

homogeneous

moderate expression: see section 10 11 18

cervico-thoracic ganglion

weak

regional

weak expression: see section 08 16

cervical ganglion

moderate

regional

moderate expression: see section 07 weak expression: see section 08 17

dorsal root ganglion

moderate

regional

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

neural retina

moderate

regional

moderate expression: see section 03 04 05 weak expression: see section 02

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T8477
Entity Detected:	Pcdhb9, protocadherin beta 9 ( MGI:2136744)
Sequence:	sense strand is shown >T8477 GCAGACAAGAGCTTTGCAAGCACTATGGAGCTATAGAGGGTTTGGGGCAAGAATATAATGGATTAATATG AGATTATGAGCAACACGGTGAAGATTCCTCCAAAGAGGGAATCAGAATTCAGTGTTTCAAAACATTTGGA GACTGCTACAGGATTGGATGCAAGCATGCATTTCCTCATCATGGAGAAGCTGGGGAGAATTCACCTAAAC AGGCAAGTAATGGCATTTATTTTTATGATGGTTTTGGTTCAGGTTTGCAGTGAGCCAACAATTCGATACT CTATCTTAGAGGAAACAGAAAGTGGCTCCTTTGTAGCCCACCTGGCCAAGGATCTGGGTCTGGGAGCTAG GGAGCTGGCTGCCAGGTCTGCACGGGTGTTGTCTGATGATTACAAGCAGAGATTACTGCTGGATCCTGAG ACTGGAGATTTGCTTCTGAGGGAGAAAGTAGACCGGGAGGAGGTGTGTAGCACTGTGGATCCCTGTGTGC TGCATTTCCAGGTGACTCTTGAAAAGCCAGTGCAATATTTTCAAAGAGAATTATTGATCCAGGACATAAA TGATCATGCTCCAGAATTCCCAGATAGAGAACTGCTCTTGAGAATACCAGAGAACAGCCAGCAAGGCACA CAATTTTCACTGAATTTAGCCCAGGACTTGGATGTGGGCAGCAATGGGCTTCAACAATACACAGTCAGCC CCAACCCTTATTTTCACGTCCTCACTCAAAATAATAGTAAAGGCAAAAAATACCCAGAGTTGGTGCAGGA CAGAGGCCTGGACAGAGAGGAGCAGGCAGAGCTGAGCTTAACCCTCACAGCTCTGGATGGCGGGTCTCCA CCGAGGTCAGGAACAGCCCTGGTTCGAATCCTGATCATGGATATCAATGACAATGCTCCTGAGTTTGTGA ACAGTCCCTATGAGGTGCAGGTCCTAGAGAGCAGTCCTCCAGACTCCCCAGTCTTGACTGTCTTAGCACG GGATGCAGATGCTGGCAACTTTGGGAGAGTTTCCTATGGCTTCTTTCAAGCATCAGATGAAATCCAACAA ACATTCTCAATAAACGCAACTAGTGGAGACATGCGATTGAAAAAGAAATTGGATTTTGAAAAAATTAAAT CTTACCATGTGGAAATCGAGGCCATAGATGGAGGTGGGCTTTCTGGGAAAGGCTCTGTAACGATAGAGGT GGTGGATGTGAATGACAATGCCCCAGAGCTGACCATATCTTCACTGACCAGCTCTGTCCCAGAAAATGCT CCTGAGACGATCATAAGCATCTTCAGAGTTGGGGACAGGGATTCCGGAGAGAATGGAAAGATGGTTTGTT CTATTCCAGAGAATCTGCCATTTATTCTGAAATCCACCTTCAAGAACTTCTACACCCTGGTGACAGAGAG CCCTCTGGACAGAGAAAGCAGAGCTGAGTACAATATCACCATCATGGTCTCTGACATGGGCACACCCAGG CTCACAACATGGCACACCATAAAGGTGCAGGTGTCCGACATCAACGACAACACCCCCGCCTTCACCCAAA CCTCCTACACCATGTTTGTCCGCGAGAACAACAGCCCTGCCCTGCACATAGGCACCATCAGTGCCACAGA CTCAGACTCAGGCTCCAATGCCCACATCACCTACTCGCTGCTGCCGCCCCATGATCCGGAACTGGCCCTC TCTTCGTTAATCTCGATTAACGCTGACAATGGGCAGCTGTTTGCACTCAGGGCGCTGGACTATGAGGCCC TGCAGGTCTTCGAGTTCCACGTGGGCGCCACAGATGGAGGCTCACCTCCACTTAGCAGCCAGGCTCTGGT GCGCGTGGTGGTGCTGGATGACAATGACAATGCGCCCTTCGTGCTCTACCCTATGCAGAACGCCTCGGCT CCCTTCACTGAGCTGCTGCCTAGAGCTGCGGAGCCAGGCTACCTGGTCACCAAGGTGGTTGCAGTGGACC GCGACTCTGGCCAGAATGCCTGGCTATCCTTCCAGTTGCTCAAGGCCACGGAACCTGGGCTGTTCAGCGT GTGGGCGCACAATGGAGAGGTGCGCACCACCAGGTTGTTGAGTGAGCGCGATGTGCCCAAGCACAGGCTA CTGCTGGTGGTCAAGGACAATGGAGAGCCTCAGCGCTCTGCCAGTGTCACTCTGCAGGTGCTGTTAGTGG ATGGCTTCTCACAATCTTACTTACCTCTTCCAGAGGTAGCGCGGGATCCCGCCCATGAAGATGAGGACGT GCTTACATTGTACCTGGTCATTGCCTTGGCATCTGTGTCTTCTCTCTTCCTCCTGTCTGTGCTGCTGTTT GTGGGGGTAAGACTGTGCAGAAGGGCCAGAGAGGTCTCTCTGGGTGGCTGCTCTATGCCTGGTGAACACT TTCCTGGCCACCTGGTCGATGTCAGTGGAGCAGGGACCCTGTCCCAAAGCTACCAGTATGAGGTGTGTCT GAGGGGCGACTCTGGGACTGGTGAGTTCAAGTTCCTGAAACCCATGATCCCCAATGCTGGGATAGAAATT ATGGAAAGTCCCCACTGCAGGGATAGCTTTGTATTCAACTAAGTAATGAACCTTAAGAATTAATACACTT TTATATGGTTAAGTGTAACATTAACTAACTTTAGGAGAAACTACCTTGTGCATGTCTCCAACCGCTTTTG TTTATCTTATTCATATTACGCACGCTTAGTCTGCCATTATACCACATGTTAAATGTGGGTTTTCTACATG TTCAGTGTCTTTGGTGAATAATAATCTCACGACTACAAGTAGCTCAAGTAGCATAGAATTTCCTCAAGTG ACTTTAATGCTCATATGAAAATTTGAATTTCTGTATAATTATGACACCTGTTCTAACTGTATCTTCTATA TTTTTAAGATCAGAATGCTTAGAATTATTTGGCCTTAGAATACTTATTTTTTCCCAAATCATGTCAAGAT GCACTTCATTAGAACACTCAGTTGTGACACTTGTCGTGAGCATCATAAATGTTTGTCATTCTTTTCATGA AATAAAGTTGTTAATCCATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5703531 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:5703531 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:19786 same embryo
	EMAGE:19785 same embryo
	EMAGE:19784 same embryo
	EMAGE:19788 same embryo
	EMAGE:19789 same embryo
	EurExpress:euxassay_006303 same experiment
	MGI:4827088 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