EMAGE mouse gene expression spatial database

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EMAGE:17926

Syt9 synaptotagmin IX ( MGI:1926373)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_011683. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_011683_01	euxassay_011683_02	euxassay_011683_03	euxassay_011683_04

euxassay_011683_05	euxassay_011683_06	euxassay_011683_07	euxassay_011683_08	euxassay_011683_09

euxassay_011683_10	euxassay_011683_11	euxassay_011683_12	euxassay_011683_13	euxassay_011683_14

euxassay_011683_15	euxassay_011683_16	euxassay_011683_17	euxassay_011683_18	euxassay_011683_19

euxassay_011683_20	euxassay_011683_21	euxassay_011683_22	euxassay_011683_23	euxassay_011683_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:

17926_wholemount_strong.wlz

17926_wholemount_moderate.wlz

17926_wholemount_weak.wlz

17926_wholemount_possible.wlz

17926_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:17926_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

lateral ventricle choroid plexus

weak

regional

weak expression: see section 08 09 10 11 12

metencephalon part of 4th ventricle choroid plexus

weak

regional

weak expression: see section 03 04 05 06 07 08 09 10 11 12 17 18 19 20

glossopharyngeal ix ganglion

weak

regional

weak expression: see section 05 06 15 16 17

trigeminal v ganglion

weak

regional

weak expression: see section 03 04 05 06 07 08 16 17 18 19

dorsal root ganglion

moderate

regional

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

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T37109
Entity Detected:	Syt9, synaptotagmin IX ( MGI:1926373)
Sequence:	sense strand is shown >T37109 CCAGAAAGTGTTCCAGTTTTCCAAGTAATGGCCCAAGAAAATACTAGGCTAAGCCAGCCTGGAAAAAGTC TCATGCAAGGCAGGTCAGTTCATAGCAAACTCACTGTCCCTTCCCATGCACATGGCAGAGTCCCACTTAG CCATGGTCATTCTTCACAGAACCCAGGTTCTGGGATTCTAAAACATTATTTCCAAGTAGCCTCTTCCTTT CCAGCAGTGATATTACTAGAGTGAAACGTGCCATCTTTGTTAGGGACACTTGCCTCCCAGTGGAATATGC ATCCAGGAATAATCTTTCCTGGACACAGAAGTGTGTGTTATGAGATAAGATCACTGAGAGATGACACTGG AAAAAGGCACAGCTTTTGGGCTTTCTTGACACAGCTGCCTTCTGGCTGTTTCCATATGCAACAGCCCAGG GTATAGACTTGGGCAGCCACAGAAAGAGGCTCTTTTCCACCTCAGACACATACCACTTTTGCAGCACTTG GGGAATGGAAATACCTACAAGAATGAAGGCCAAGGGCTCTCCCCAGGGTAGCTCATCCATTACCCAGCAT CCTCCTGGACCAGTCTACTGCCAGTTGTGCACCTCATCCTTCCTGTGTCTGCCTCCAGGAAATGAAACCA AAGGCCCCAGTACCCCCTGAATGGACTGGGGGCTATTACCTAAAGGTCCTCTCTCATCCTGGGTCTAGAA GACCCTCCCCCTGCATCACTGTTCCACAATTCCATTCCCCTCCAGTCTCTGTAACAGAACCCAGAGTTGG GTTGCAGTTAACCATCCTGGAG
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from wild type C57BL/6J mouse whole brain cDNA), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 94499. Forward Primer - name:094499_F_cDNA_Syt9, sequence:CCAGAAAGTGTTCCAGTTTTCC; Reverse Primer - name:094499_N_SP6_cDNA_Syt9, sequence:CTCCAGGATGGTTAACTGCAAC. The reverse primer contains a 5' extension containing an Sp6 RNA polymerase binding site (this extension is not shown in the primer sequence listed here). Anti-sense probe was transcribed from the PCR amplified template using Sp6 polymerase.
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:17924 same embryo
	EMAGE:17925 same embryo
	EMAGE:17928 same embryo
	EMAGE:17927 same embryo
	EurExpress:euxassay_011683 same experiment
	MGI:4828575 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