EMAGE mouse gene expression spatial database

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EMAGE:7676

Sema3a sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A ( MGI:107558)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_005291. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_005291_01	euxassay_005291_02	euxassay_005291_03	euxassay_005291_04

euxassay_005291_05	euxassay_005291_06	euxassay_005291_07	euxassay_005291_08	euxassay_005291_09

euxassay_005291_10	euxassay_005291_11	euxassay_005291_12	euxassay_005291_13	euxassay_005291_14

euxassay_005291_15	euxassay_005291_16	euxassay_005291_17	euxassay_005291_18	euxassay_005291_19

euxassay_005291_20	euxassay_005291_21	euxassay_005291_22	euxassay_005291_23

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:

7676_wholemount_strong.wlz

7676_wholemount_moderate.wlz

7676_wholemount_weak.wlz

7676_wholemount_possible.wlz

7676_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7676_all_domains.zip

Find spatially similar wholemount expression patterns:

EMAGE spatially similar wholemount patterns

Morphological match to the template:

Annotation Validation:

spatial mapping by EMAGE editor

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T8913
Entity Detected:	Sema3a, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A ( MGI:107558)
Sequence:	sense strand is shown >T8913 ACAGTTGTGCCTCATTATCCGGTGCCTGGCTCGATTTTTTTCTTTCTTTTTTCTTTTTTTCTTTTCTTTC TTCCTTTTTTTTTTTTTTCTTTTTTTGAGGGTTTGAAGTTTCTGTGATTCCGTGACTGTTACAGAAGAGA CGTTAGTGTTGCCATGAGGTCTTGATTGTCTGCATTTATGAATGAAACTGACCTAAATCACCTGTTACCT CCAGTTTCCAGATTGTTTGAACTTCTCTGGCCGCACAATACAGGAAGGAAGGCTGCCGCAGCTCAGGGAC CTCCAGCGTCTGCAGCATGGGCTGGTTCACTGGGATTGCCTGTCTTTTCTGGGGTGTATTACTTACAGCC AGAGCAAACTATGCAAACGGAAAGAACAATGTGCCAAGACTGAAATTATCGTACAAAGAAATGTTGGAAT CCAACAATGTGATCACTTTTAATGGCTTGGCCAACAGCTCCAGTTACCACACCTTCCTTCTGGATGAAGA ACGGAGTAGACTATATGTTGGAGCAAAAGATCATATATTTTCATTCAACTTGGTGAACATTAAAGATTTT CAAAAGATTGTGTGGCCAGTATCTTACACAAGGAGAGATGAATGCAAATGGGCTGGAAAAGATATCCTGA AAGAATGTGCCAATTTCATCAAGGTCCTGGAGGCTTATAATCAGACTCACTTGTATGCCTGTGGAACTGG GGCTTTCCATCCAATCTGCACCTATATTGAAGTTGGACATCATCCTGAGGACAACATTTTTAAGCTGCAG GACTCACATTTTGAAAACGGTCGTGGGAAGAGCCCTTATGATCCCAAACTACTGACTGCCTCTCTTCTAA TAGACGGTGAGTTGTACTCTGGAACTGCTGCGGACTTCATGGGACGGGACTTCGCTATCTTCAGAACACT GGGGCACCATCACCCCATCAGGACGGAGCAGCATGACTCCCGGTGGCTCAATGATCCTAGATTCATCAGT GCCCATCTCATCCCAGAGAGTGACAACCCTGAAGATGACAAAGTATATTTTTTCTTCCGAGAAAATGCAA TAGACGGAGAACACTCTGGAAAAGCCACTCATGCTAGAATAGGTCAGATATGCAAGAATGACTTTGGTGG ACACAGAAGTCTTGTGAATAAATGGACAACATTCCTAAAAGCACGCCTGATTTGCTCTGTGCCCGGTCCC AATGGCATTGACACCCATTTTGATGAATTGCAGGATGTATTCCTAATGAACTCTAAAGATCCTAAAAATC CGATCGTCTATGGAGTGTTCACAACATCAAGCAACATCTTTAAGGGATCTGCTGTGTGCATGTACAGCAT GAGTGATGTAAGAAGGGTGTTCCTTGGTCCATATGCTCACAGAGATGGTCCCAACTATCAGTGGGTGCCT TACCAAGGAAGAGTCCCTTATCCACGGCCAGGAACTTGTCCCAGTAAAACATTTGGCGGATTTGACTCCA CAAAGGACCTTCCTGATGATGTCATAACTTTTGCAAGAAGTCATCCAGCCATGTACAACCCAGTGTTTCC TATAAATAATCGCCCGATCATGATCAAAACAGATGTAAATTATCAGTTCACACAAATTGTTGTAGACCGA GTGGATGCAGAAGATGGCCAGTATGATGTTATGTTCATCGGAACAGATGTTGGAACCGTTCTTAAAGTGG TTTCAGTCCCCAAGGAGACTTGGCATGACCTAGAAGAAGTTCTTCTGGAAGAAATGACCGTCTTCCGGGA ACCAACAACTATTTCGGCAATGGAGCTTTCTACTAAACAGCAACAGCTGTACATTGGCTCAACTGCGGGA GTGGCACAGCTTCCTCTACACCGCTGTGACATCTATGGCAAAGCCTGTGCAGAATGCTGCCTCGCTCGGG ACCCTTACTGTGCCTGGGATGGGTCCTCATGCTCACGCTATTTTCCTACTGCAAAGAGGCGCACAAGACG ACAAGATATAAGGAATGGAGACCCACTGACTCACTGCTCTGACTTGCAGCACCATGATAATCATCATGGG CCCAGCCTTGAAGAGAGAATCATCTATGGAGTGGAAAACAGTAGTACATTCTTGGAATGCAGTCCGAAGT CACAGAGAGCCTTGGTATATTGGCAATTTCAGAGGAGAAATGAAGATCGAAAAGAGGAGATCAGAATGGG TGATCATATCATCAGGACAGAACAAGGGCTCCTGCTCCGTAGCCTGCAGAAGAAGGATTCAGGCAATTAC CTGTGTCACGCTGTGGAACACGGATTCATGCAAACTCTTCTTAAGGTAACCCTGGAAGTCATTGACACAG AACATTTGGAAGAACTTCTTCATAAAGATGACGATGGAGATGGCTCTAAGATAAAAGAAATGTCGAGCAG CATGACGCCCAGCCAGAAAGTCTGGTACCGAGACTTCATGCAGCTCATTAACCACCCCAACCTGAACACG ATGGATGAGTTCTGTGAACAAGTGTGGAAAAGGGACCGAAAGCAACGCCGACAAAGGCCGGGGCACTCTC AAGGGAGCAGCAACAAGTGGAAGCACATGCAAGAGAGCAAGAAAGGTAGAAACAGGAGGACCCACGAGTT TGAGCGGGCACCCAGAAGTGTCTGAGCTGCGCCACCTCCCAAAACCTCAAACAAGTACAAACTTGCTTAG ATAATAACTGGAAAAAATGCAATACACATGAACATTTCATGGCATTATGTGGATGTTTACAATGATGGGA AGTTCAACCGGGTTCCACCAATTTAAGTCCGTGAGGAACTTTCCCAGCAGGCTTTCTTCAGTATACCAAC GCTTGACAGAGATCACAGGTGAGCATAGATGTTCACGTCCGCTGACTTAGTGTTTCCTCTGAAAGTTCAT TTTGCTTCCTTCTTTGCCTGAGAAATAAAAATGTCATTTGCCATCGAAAGGAGAAAAACTGCATCAGCAA AGCCATTTTATTGAAGCAAGAGTTGAAAATAAACTGCATGGATTTAGTAAGCAGATGAATATTCCAAAAC GTGATTGGATTCAAGGATGTTTTGTCTACCAGCACTCGTGTTGTATGTACTGGAGAAGTAAAATAAGGAG AATGACACTGAGTGAAATAGTCTATGGAGATATAAAAACACAAACCACCCATCATCCAGAGTAATGGAGT ACATTGATCTACTACTGATGTCTTCTTTCAGCTTTGATCTAAAGATGTATTTTATTAAAGTTATAATTTA AATGTACCATGGCAAATATGCAGTAAAGATTAGCTGTTTCCTAAGCTAGAGTAGGTCTTGTCTTGCAGTT ACCATGCTATATCGTTTGTTTAAAAATTCCAACTGTGTGCTGCTTTTTTACATTGTGTTTTCAGTTCTGT AAGAGGCAGTATATCACTTTAGGTCCCTACTCACTGTACTATTACTTACTGACACCAAGAATTATGGTCT TCCCCTTTGAAGAAACCAAACAGATAGAAGGTTATCACCCTGACTTGCAAAGGTATTATCTAAGTTAACT CTCACATACATAATGTTTTCAGTCAACCAAAAATTAAGACAGCACAAAGAGAAGAAAACAGTCATTAGAG GCATCCTGAAGGATCAAGAGCAAAATTAAATTCATGTGTCTCATGAAAAGAACATTGTCTTAACAGAGTG TTGATAAAATGTCTTTCCCTCTTGGCTTGAATATTTGCATGATGTGTGAGGCATAGGACTCGCTCATGAT TCCACATCCCACCAAAGATTCTATTTTCAGTCACTTAATGATTTCCAAAGCAGAGAGAAAGAGCGGGGGT GGGGGGAATCAGTGACATTCAGGACATGTTCTAACAACAAAATGACACATTTCTCAACTATTTCTTTGTG AATCAACTAAATTTTACCCACCCTGTATGATACAATTATTTGTCTGAACAACTTATAAGTGTTTTATCTC AATGAGAGTGAAACTATACACTTCACCTAGAAAGTGCAAAATTCTTTGTTTTATGAATAAAATATAAGAT AACACAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:6416990 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:6416990 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:7672 same embryo
	EMAGE:7674 same embryo
	EMAGE:7675 same embryo
	EMAGE:7677 same embryo
	EMAGE:7673 same embryo
	EurExpress:euxassay_005291 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