EMAGE mouse gene expression spatial database

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EMAGE:12162

Pcdhb3 protocadherin beta 3 ( MGI:2136737)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_007058. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_007058_01	euxassay_007058_02	euxassay_007058_03	euxassay_007058_04

euxassay_007058_05	euxassay_007058_06	euxassay_007058_07	euxassay_007058_08	euxassay_007058_09

euxassay_007058_10	euxassay_007058_11	euxassay_007058_12	euxassay_007058_13	euxassay_007058_14

euxassay_007058_15	euxassay_007058_16	euxassay_007058_17	euxassay_007058_18	euxassay_007058_19

euxassay_007058_20	euxassay_007058_21	euxassay_007058_22	euxassay_007058_23	euxassay_007058_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:

12162_wholemount_strong.wlz

12162_wholemount_moderate.wlz

12162_wholemount_weak.wlz

12162_wholemount_possible.wlz

12162_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12162_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

forebrain

moderate

homogeneous

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 24

hindbrain

moderate

homogeneous

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

midbrain

moderate

homogeneous

moderate expression: see section 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21

facial vii ganglion

strong

regional

strong expression: see section 05 06 07 22 23 24

glossopharyngeal ix ganglion

strong

regional

strong expression: see section 08 09 10 20 21 22

trigeminal v ganglion

strong

regional

strong expression: see section 04 05 06 07 08 09 10 11 19 20 21 22 23 24

vestibulocochlear viii ganglion

strong

regional

strong expression: see section 08 09 10 20 21 22

trigeminal v nerve

strong

regional

strong expression: see section 11 19

spinal cord

moderate

homogeneous

moderate expression: see section 11 12 13 14 15 16 17 18 19 20

dorsal root ganglion

strong

regional

strong expression: see section 10 11 12 13 14 20 21 moderate expression: see section 18 19

neural retina

strong

regional

strong expression: see section 01 02 03 04

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T9422
Entity Detected:	Pcdhb3, protocadherin beta 3 ( MGI:2136737)
Sequence:	sense strand is shown >T9422 ATTAGTTGTTAGGCTGTCTCCAAAAGACCTTGCTTTTCACAGAGAGATATAAGGCCCCTCTTGGTGACAA GCCCCTGGAAATACACCGCAGAAATACAATGGAGGCCAGAGAGGAAAGCTTTCTTAAACAAAGGCAAGTC TTGCTTCTCTTTGTTTTTCTGGGTGGGTCTCTTGCTGGGTCCATGTCTAGGCGCTATTCTGTGGCGGAGG AAAAGGAGAAGGGCTTCGTAATAGCCAATTTAGCGACGGATCTGGGGCTTAGTATAGAAGAACTGGCTGA AAGGAGAGCTCAAGCTATCTCCAAAGGGAACATACAGTATTTTCAGCTCAGTCATCAGACCGGAGATTTG CTCTTAGTTGAGAAATTGGACCGGGAGGATTTGTGTGGCTCGACAGAGCCTTGTGTGCTGCACTTTCAGA TATTGCTGCATGATCCTTTGCAGTTTATTACAAATGAGCTCGAGGTCATAGATGTAAATGACCATGCCCC GGAGTTCTTTGAAAATGCAATGCAGCTGAAAGTCCTGGAAAACTCCGTGCCTGGGACAGTAATTCCTTTG GGAAATGCCGTGGACCTGGATGTGGGAAGAAACGGACTCCAGAACTACACGGTCTCTCCCACGTCTCATT TTCATGTTCACACCCGCCGTCGCAGGGATGGAAGAAAGTATCCAGAGCTAGTTCTAGACAGAGCTCTGGA TCGGGAAGAGCAGTCAGAGATCAGTTTAACTCTCACAGCCCTGGATGGAGGATCCCCGCCTCGTTCTGGA ACTACCCAGGTCCACATCCTGGTCTTAGACACAAATGATAATGCCCCAGAATTTACACAGTCACTCTATG AGGTTCAAATTTTAGAGAAAAGCCCTATTGGCTCTGTCATTACCACTGTCTCTGCCTCTGACTTGGATAC GGGAAATTTTGGTGCAATATCATATGTCTTTTTTCATGCTTCTGAAGAAATTCTCGAAACTTTTCGACTG AACTCCAGTACTGGTAATATACAGCTACTTAAGGGTTTGGATTATGAAGCAATTAATACTTATGAGGTTG ACATAGAGGCCAAGGATGGTGGAGGCCTTTCAGGGAAATGCACAGTCATAGTTCAGATACTTGATGTGAA CGATAACCCACCAGAACTGACCCTGTCATCAGTTAACAGTCTTATCCCCGAGAATTCAGCAGAAACTGTG GTGGCTGTTTTCAGTGTTTCTGATTTAGACTCTGGAGATAACGGAAGAGTGACATGTTCCATCCAGAACG ACCTCCCCTTCATCTTGAAACCATCTGTAGAGAACTTCTATACTATAGCGTCCGAATGGGCTTTGGACAG AGAGATCAGAGCTGAGTACAACATCACCATCACGGTCTCAGACCTGGGCACACCCAGGCTCACAACCCAG CACACCATAACAGTGCAAGTGTCTGACCTCAACGACAACGCCCCCGCCTTCACCCAAACTTCCTACACCA TGTCGGTCCGTGAGAACAACAGCCCTGCCCTGCACATAGGCACCATCAGTGCCACAGACTCAGACTCAGG CTCCAATGCCCACATCACCTACTCGCTGCTGCCGCCCCACGACCCACAGCTGGCCCTCGATTCACTCATC TCCATCAATGCTGACAACGGGCAGCTGTTTGCACTCAGGGCGCTGGACTATGAGGCCCTGCAGGCCTTCG AGTTCCATGTGGGCGCCACAGATGGAGGCTCACCCGCGCTCAGCAGCCAGGCTCTGGTGCGCGTGGTGGT GCTGGACGACAATGACAATGCGCCCTTCGTGCTCTACCCACTACAGAACGCTTCTGCGCCCTGCACTGAG CTGCTGCCCAGGGCTGCGGAGACTGGATACCTGGTCACCAAGGTAGTGGCAGTGGACCGCGACTCTGGAC AGAATGCCTGGCTGTCATTCCAGCTGCTCAAGTCCACAGAGCCCGGGTTGTTCAGTGTGTGGGCTCACAA TGGCGAGGTGCGCACCGCCAGGCTGCTGAGTGAGCGCGATATGCTCAAGCAAAAGCTGCTGCTACTGGTC AAGGACAATGGGGATCCTCCTCGCTCTGCAAGTGTCACCCTGAATGTGCTGCTAGTGGATGGCTTTTCTC AACCCTACCTGCCTTTGCCTGAGGTGGCACGCGACTCCGTCCAAAACGACGTGGACTTGCTCACGTTGTA CTTAGTCATCGCCTTGGCATCTGTGTCTTCTCTCTTCCTCTTGTCTGTGCTGCTGTTTGTGGGGGTGAGA CTGTGCAGGAGGGCCAGAGCAGCTTCTATGGGTGGCTGCTCTGTGCCTGAGGGACACTTTCCTGGCCACC TGGTGGACGTCAGCGGTATGGGGACCCTGTCACAGAGCTACCAGTATGAGGTGTGTCTGACAGGAGATGC TGGGACTGGTGAGTTCAAACTCCTGAATCCGGTGATACCAAACCTGTTTCTGGAAGAATCTGAAAGAAGT TAAGGGAAGTTCCCACTGTAGGAGCAGCTTTGTAGTCAGCTAAGAATTGTAAGTGGTTTGTCCTCTCTTG GTCCTGGTAAACTTCTTATTCTAATTATTCTTTTAAAAAGTTGTACTACCCATTTTTTTTCTTTATCAGT AATTCAAGCCATGGTATCCCAAATAGCTTTAATTACTGATAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:30360109 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:30360109 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:12166 same embryo
	EMAGE:12163 same embryo
	EMAGE:12167 same embryo
	EMAGE:12164 same embryo
	EMAGE:12165 same embryo
	EurExpress:euxassay_007058 same experiment
	MGI:4827085 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