EMAGE mouse gene expression spatial database

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EMAGE:7538

Sgms1 sphingomyelin synthase 1 ( MGI:2444110)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_004662. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_004662_01	euxassay_004662_02	euxassay_004662_03	euxassay_004662_04

euxassay_004662_05	euxassay_004662_06	euxassay_004662_07	euxassay_004662_08	euxassay_004662_09

euxassay_004662_10	euxassay_004662_11	euxassay_004662_12	euxassay_004662_13	euxassay_004662_14

euxassay_004662_15	euxassay_004662_16	euxassay_004662_17	euxassay_004662_18	euxassay_004662_19

euxassay_004662_20	euxassay_004662_21

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:

7538_wholemount_strong.wlz

7538_wholemount_moderate.wlz

7538_wholemount_weak.wlz

7538_wholemount_possible.wlz

7538_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7538_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

strong

regional

strong expression: see section 06 07 08 10 11 12 13 14 15 16

4th ventricle lateral recess

strong

regional

strong expression: see section 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 19 moderate expression: see section 18

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T7699
Entity Detected:	Sgms1, sphingomyelin synthase 1 ( MGI:2444110)
Sequence:	sense strand is shown >T7699 CCGGAAGAAAGACTGATGAAGAAAAGTAACAGCATGATTGAGGTAATGGAGACCTACTGGAACACGCGGA GAAGCTAGTATCTTGCAGGAAGCCAAGATGAGGAGAGTCTTTTTAAAATAATCCAAGGAAGAATTCTGTT CAGAAATGAGGCGAACGAATGTTTGGACACCGTTGCATGAAGTGTTTTAAAACTGCCCTGACCATCTTGC CAAATGAGTCTCTGCTCATGAGGCCCAACAAGATGAACCAGCCAAGGAGGGATAGTGTCCTGCCCTGTAC GAACAGTGACTGCTGACGTCTGAGAGCAAGCTGGGGGTACTGAATGTTGTCTGCCAGGACCATGAAGGAA GTGGTTTACTGGTCACCCAAGAAGGTGGCAGACTGGCTGCTGGAGAATGCTATGCCAGAATACTGTGAGC CTCTGGAGCACTTCACAGGCCAGGACTTAATCAACCTAACCCAAGAGGATTTCAAAAAACCCCCACTGTA CCGAGTCTCCTCTGACAATGGGCAGCGACTCTTAGACATGATAGAGACCCTGAAGATGGAGCACCATATG GAAGCACACAAGAATGGCCACGCCAACGGACACCTCAGCATTGGCGTTGACATTCCCAACCCCGATGGCA GCTTCAGCATCAAGACTAAACCCAACGGAATGCCAAATGGGTTTAGGAAAGAGATGATCAAGATCCCCAT GCCAGAACCGGAGCGCTCCCAGTATCCCATGGAGTGGGGCAAGACTTTCCTGGCCTTTCTTTATGCACTT TCCTGTTTTGTTCTCACTACAGTGATGATCTCGGTCGTCCATGAACGAGTACCTCCTAAGGAGGTGCAGC CTCCACTACCGGACACGTTTTTTGACCATTTTAACCGGGTGCAGTGGGCGTTTTCTATTTGCGAAATTAA CGGCATGATCCTTGTAGGACTCTGGCTATTTCAGTGGCTGCTCTTAAAATACAAGTCTATTATTAGCAGA AGATTTTTCTGCATAGTTGGCACGCTGTACCTGTATCGGTGTATTACAATGTATGTAACTACACTCCCAG TACCTGGCATGCATTTCAACTGTTCTCCGAAGCTCTTTGGAGACTGGGAAGCTCAAGTGCGGAGAATAAT GAAGCTCATTGCTGGAGGTGGCTTATCCATCACAGGCTCGCACAACATGTGTGGCGACTATCTGTACAGT GGCCACACGGTCATGCTAACGCTCACCTACCTATTTATCAAAGAGTATTCTCCTCGGCGGCTCTGGTGGT ACCACTGGATTTGCTGGCTCCTCAGCGTCGTTGGAATCTTCTGTATTCTCTTAGCGCATGACCACTACAC TGTGGACGTGGTGGTGGCCTACTACATCACCACAAGACTCTTCTGGTGGTATCACACGATGGCCAATCAG CAAGTGCTTAAGGAAGCCTCCCAGATGAACCTCCTGGCCAGGGTGTGGTGGTACAGGCCATTTCAGTACT TTGAAAAGAATGTCCAAGGAATTGTACCTCGATCTTACCATTGGCCCTTCCCCTGGCCGGTAGTCCACCT TAGTAGGCAAGTTAAATATAGCCGGCTGGTAAACGACACATAACAGCTCTGCCGACTAGGGAATGAAGAA CAGTCCGAAGTGCTAAGAACTCCATGACAGAAGATGCCATAAAGTAACCACCTCCCCCTGCTATCTCTCA AGTTACCTTGACTTAACCTATTGCGTTACCTGCTCAGCACTGTGATCTTTTTTTTTCTCTCCAAAGGACC CGCGTTGGACAACAATAAAGAAAAGTTCCCACATCATGCACTGTAGACATTTCCTGTTGTTAAGCTTGGG GCTTCTATAACAGGCAGCCACCGTGTCCCTCTGTGTCATTCAGCCGCACCACCGTGTGCTTCTGTATCCT AAGCTCCGGCCTTTCCAGCCATATCTGGAAATAAAGTGTGTTATTTTCTTGGGAAAACATACTTTTCATA TCTCTTGCCCCAAAGACAGGGCTGTAAGCCATTTTCTAGTAAATGTCTCTATGAAGGGTCCTAAGTGTCT GCATGGGAGTTGATTTAGAATCTCTCTGCCTATTGCACTGATGCTCGGCTGAAGACGATAGGTCCAGAGA GGTTTGCTCGCCTGGGGTTTTATACAGTCAGCAGAGACGGTGTATCAAAAAGTGCAAAAAAAAAAAATCT GTTATAAAGTGATTTTTCTAAGTATTTCCTAACTTTATTTTTCAAAATGATGTTATGAAAACCAAATTTA AAGATTTTTACATGTCACAGAAAAGAGAGTTAACATTTAAAAGTGCTTCTTGGGAGAGAAATTTGTCTAT GTTTCTAGTGCCTTTCTTGTCTTGATTGTATGGTCGGTTGGTAGGCAATCTTAAATGTTTTTATTTATTC CATGAAAATATAAATGTATGTATACACTACTAAATTTTACATTTATAGCTAAATTAAATCAGAAGACTGC TAGTGGTTTTAAAATTGTTTTGAACTGAAGAATAGAGGGTGTGAATTAGAGTACGCACCCATTCACATAT TGTGAGCAGGCCGCACTGCCAGGTGCCGCTGAGATTATGCCATCTGTTTGGTAGTTTGGTTTTAACTACT CAATAAAAACAGCCATGAATATCTTTTTTTAAAGAGAGTTTCGAAAATGATCACTTACCTAAAACTTGAA AGCTATAAACTAGTTATCCATACTCTCATGACAGTTTTGTTGGTGAACAACAACAAAAAGATCTATTTCT TTAAAATATATTTGTGCAGAAACTGCATGTAATTCTGAGTTTTCCTCCTGACATACATATGTTTGGGGAA GTATTCTACTCTATACTTGCCAACGTGGAGAACAAAATAGTTTTCTAAGAGCGAAGAAGTATATATATAT AAATATAAATATAATATCCATTCTGTATTTTATGTGCAGCAGGATTACCTTCTGTAGGTTTTTTTGTGTG TGTGCACATGCACAAGTGTGTGTGCGTGTTCATGTATGAGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTG TGTGTGTACTCACAAGGTGATATTTGTATTGTAAAACAATAATGGTGAAGGAAATAAAAAGGCTTTTAAA TTTTTGTTTGTTTTAAATCTTTGTAAAGTTATTATTCCAGAGAGTATACTGATATCTTACAACTTACCTA AATCATAAATTAATCAAAATGCACTTTTTAATAAAAACTTATACTGAAAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:6307174 using vector (pCMV-SPORT6.1) 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:6307174 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:7535 same embryo
	EMAGE:7537 same embryo
	EMAGE:7540 same embryo
	EMAGE:7536 same embryo
	EMAGE:7539 same embryo
	EurExpress:euxassay_004662 same experiment
	MGI:4828026 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