EMAGE mouse gene expression spatial database

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EMAGE:11218

Syngr3 synaptogyrin 3 ( MGI:1341881)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_003209. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_003209_01	euxassay_003209_02	euxassay_003209_03	euxassay_003209_04

euxassay_003209_05	euxassay_003209_06	euxassay_003209_07	euxassay_003209_08	euxassay_003209_09

euxassay_003209_10	euxassay_003209_11	euxassay_003209_12	euxassay_003209_13	euxassay_003209_14

euxassay_003209_15	euxassay_003209_16	euxassay_003209_17	euxassay_003209_18	euxassay_003209_19

euxassay_003209_20	euxassay_003209_21	euxassay_003209_22	euxassay_003209_23	euxassay_003209_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:

11218_wholemount_strong.wlz

11218_wholemount_moderate.wlz

11218_wholemount_weak.wlz

11218_wholemount_possible.wlz

11218_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:11218_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

moderate

homogeneous

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

telencephalon mantle layer

moderate

regional

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

telencephalon marginal layer

moderate

regional

moderate 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

olfactory cortex marginal layer

moderate

regional

moderate expression: see section 10 11 12 13 15 16 17 18 19

hindbrain

moderate

homogeneous

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

midbrain

moderate

homogeneous

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

facial vii ganglion

strong

regional

strong expression: see section 05 06 21 22

glossopharyngeal ix ganglion

strong

regional

strong expression: see section 08 20 moderate expression: see section 07

trigeminal v ganglion

strong

regional

strong expression: see section 04 05 06 07 08 09 19 20 21 22 23 24 moderate expression: see section 10 18

vagus x ganglion

strong

regional

strong expression: see section 09 19

vestibulocochlear viii ganglion

strong

regional

strong expression: see section 06 21 moderate expression: see section 07 weak expression: see section 08 09 19 20

spinal cord

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16 17 18

cervico-thoracic ganglion

moderate

regional

moderate expression: see section 11 12 17 18

cervical ganglion

moderate

regional

moderate expression: see section 10 18

thoracic ganglion

moderate

regional

moderate expression: see section 13 14 15

dorsal root ganglion

strong

regional

strong expression: see section 08 09 10 11 12 17 18 19 moderate expression: see section 13

cornea stroma

moderate

regional

moderate expression: see section 23 not examined expression: see section 01 02 03 04 24

neural retina

weak

regional

weak expression: see section 01 02 03 04 24

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T5447
Entity Detected:	Syngr3, synaptogyrin 3 ( MGI:1341881)
Sequence:	sense strand is shown >T5447 GCTTCATCCCCGGGCGGTCTCCGGCGGGGAAGGCCGGTGGGACAAACGGACAGAAGGCAAAGTGCCCGCA ATGGAGGGAGCATCCTTTGGCGCGGGCCGTGCGGGAGCTGCCTTTGATCCCGTGAGCTTTGCGCGGCGGC CCCAGACCCTGTTGCGGGTCGTGTCCTGGGTGTTTTCTATTGCGGTGTTCGGACCGATTGTCAACGAGGG CTACGTGAACTCCGACAGTGGTCCAGAACTGCGCTGCGTCTTCAACGGAAATGCGGGAGCCTGCCGCTTC GGCGTCGTACTAGGTCTAGGGGCCTTCATCGCCTGCGTGGCCTTCTTGCTGCTGGACGTGCGCTTTCAGC AGATCAGCAGCGTCCGAGACCGTCGCCGGGCTGTGCTACTGGACCTGGGCTTCTCAGGGGTCTGGTCCTT CCTGTGGTTCGTAGGCTTCTGTTTCCTCACCAATCAGTGGCAACGAACAACGCCAGGGCCAGGCACCGCG CAGGCTGGAGATGCGGCGCGTGCTGCCATCGCTTTCAGCTTCTTCTCCATCCTCAGCTGGGTGGCGCTCA CCGTGAAGGCCCTGCAGCGGTTCCGCCTAGGCACCGATATGTCTCTCTTTGCCACAGATCAGCTAGGTAC TGGGGCTGCCCAGGCCTACCCAGGCTACCCAGTGGGCAGTGGTGTGGAGGGTACAGAAACATACCAGAGC CCGCCCTTCACTGAGACCCTGGACACCAGCTCCAAAGGGTACCAGGTGCCTGCCTATTAGTAGGTGTTAG GCTCCGGCCAGGGCTGGAAGGCCACCTCACCACCGTAGGCCTCAAGGCCTCCTGAGACCTTTTCTGGGTC CTACCGTGCCAAGGACAGAGAAGGTGGCCACTATGGGCCTCTGGGACCAAGGGGAGTAGCCTCCCTGGTG CCTGGACTGTCCCCACAAAGTTCCCCCCTAGCCAGAGATCTCAGTCTTAAGGCCCTGAGAAGAAAACTAC TTCTTGGAGTGGACTGGCCTGGGAGGCATTCCTTTTATGGGCCAGCCAACCAGGGACTCACCTGTCCACT CTAGGTCAGAAGTCCAGCTGCCTCCCAGCTCAGGGTGCAAGGGCTCTGGGGACCAGGGAGAGGGAGACTA ATTGTACCCTTAGGTGGGGATTATGGCCCTTGTTCCCAGTCCCATGTCCCTGGCTCCACATGGTGGTCCA CCCTGTCCAGAGGCTCCCTCCCCTCCTCTTACAGGATCCCTAGAGCAGCTCAGCCCTGTCGGTGTCGTGA TTGTGATTAAGTCTTCAGGTCTCATCTCATAGTGCCCCCATAAGCCGCCCCTCTCTGTGTGGCTCCTGCC CAGGTGTTTCTGGCCAGGAAGGTATAGACAACTATGGGCCTGGGCACCCGCCCTTCAGTAAGACCTTCCC TAGGGAACAGACAGCTGGGTACCTGGGTGCCAGGCAAGACAAGACTCTTACAAGGAGAGGACTAAAGGTC TCATCTGCCCAGGGTGTCACTGGAGAGTCGTTCCTGTAAATGGCTTAACCTTGGCTTCCTGAACCAGTCC CTCCCTAGTCTATCTTCTATCCCCTTTTAAGGCCCAGACCAGGTGTGGGTCCTTGTGCATAGCAGACTAC TCATACATTGCTTGAAGCTGGCTTTTCACATCAAGTCAAAACCAAACTCGTTGCCATGTCTCATTCTTCC AGACAAAATGCCTCCCTGTGGAGTTGCAGTTGAATGACAACCCTGTACGTTGTAGCATAGACCAATCATG TGGATATTTAAGTGAACATGTTTACAATTTTTGTATATATGGATCTATTCCTTTTCCTCTGAAAGAACAA TCCATGATTGTGTATTTTCAGTGTCCCCTGTTACAACTGCAACTTCTTTACAATAAAGACTGTACGTGCA TTGCCCATCAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5369651 using vector (pCMV-SPORT6) specific primers. Forward Primer - name:RZPD T7, sequence:TAATACGACTCACTATAGGG; Reverse Primer - name:RZPD sp6, sequence:ATTTAGGTGACACTATAG. Anti-sense probe was then transcribed from the PCR amplified template using Sp6 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:5369651 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:11215 same embryo
	EMAGE:11216 same embryo
	EMAGE:11217 same embryo
	EurExpress:euxassay_003209 same experiment
	MGI:4828557 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