EMAGE mouse gene expression spatial database

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EMAGE:7175

Sema3e sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E ( MGI:1340034)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_002631. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_002631_01	euxassay_002631_02	euxassay_002631_03	euxassay_002631_04

euxassay_002631_05	euxassay_002631_06	euxassay_002631_07	euxassay_002631_08	euxassay_002631_09

euxassay_002631_10	euxassay_002631_11	euxassay_002631_12	euxassay_002631_13	euxassay_002631_14

euxassay_002631_15	euxassay_002631_16	euxassay_002631_17	euxassay_002631_18	euxassay_002631_19

euxassay_002631_20	euxassay_002631_21	euxassay_002631_22	euxassay_002631_23	euxassay_002631_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:

7175_wholemount_strong.wlz

7175_wholemount_moderate.wlz

7175_wholemount_weak.wlz

7175_wholemount_possible.wlz

7175_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7175_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

telencephalon mantle layer

moderate

regional

moderate expression: see section 09 19 20 21 weak expression: see section 06 07 08 17 18

cochlea

moderate

regional

moderate expression: see section 09 18 19 weak expression: see section 20 21 22

naris

moderate

regional

moderate expression: see section 11 12 weak expression: see section 15

nasal cavity olfactory epithelium

moderate

regional

moderate expression: see section 10 12 13 14 weak expression: see section 15 17

nasal cavity respiratory epithelium

moderate

regional

moderate expression: see section 11

lung

moderate

spotted

moderate expression: see section 05 09 10 17 18 20 21 weak expression: see section 04 06 08 22 23 24

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T5242
Entity Detected:	Sema3e, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E ( MGI:1340034)
Sequence:	sense strand is shown >T5242 GGCGGCATCCCCGCTGGGTGGATCCCGCGCTCCTGGCGCAAGTGGCACTTCTTGCTTCTAATTATCGAGA GGAGAGGCGAATACGAACTAGCTGCTCGGCAAGTCAGTGCAGGAGGCTGACTTCTGGGAGGCTGGCGGGG AGGCTGGGGGAAGAGCTGGGGGAGGCTGCTGCTCTGCTCCGACTGTTTTCTCAATGAATAGCTGGCGGGG AGACTGAAGCTAGCCACAGCCTCCTCCTCACTCCGCGTCTGGGTGACGGCGACAGCACCAGCCCGGACCT GGCTCTCAAGACGCGCTCCTTGGACGGTCTCTTGCTCCGCGCTTCTAACCACCGGGCCCAAGGACAGAAA GGCTTAGCGGATCCAAATATTGCCCGGCAAATGGCACTTGGGAATGGTATTTTCTGATGACAACCCCTTC TGTTTGTGACAAAGCCTGTCGCCCGCAGTTGCCCCTGGAGGGAAGTACTAAGTAAAACTCAATCCTGTCT TAAAGTGTGGCTGCAGGGGCCAGAGGAGAGCCAGCACGCACCATGGCACCGGCCGGACACATCCTCACCT TGCTGCTCTGGGGTCACCTGCTGGAACTCTGGACCCCAGGTCACTCCGCGAACCCCTCCTACCCCAGGCT ACGCCTGTCACATAAAGAACTTTTGGAACTGAATAGGACTTCAATATTTCAAAGCCCCCTTGGATTTCTT GATCTCCATACAATGCTGCTGGATGAGTATCAAGAACGGCTCTTTGTGGGAGGCAGAGACCTTGTCTATT CCCTGAACTTGGAACGAGTCAGTGACGGCTACAGAGAGATATACTGGCCGAGCACAGCAGTAAAGGTAGA AGAATGCATAATGAAAGGAAAAGACGCAAATGAGTGTGCCAATTATATCCGGGTTTTGCATCACTACAAC AGGACACACCTTCTGACCTGTGCTACTGGAGCTTTTGATCCACACTGTGCCTTCATCAGAGTCGGGCACC ATTCAGAGGAACCCCTGTTTCACCTGGAGTCACACAGATCTGAGAGAGGAAGGGGCAGATGTCCTTTTGA CCCCAACTCCTCCTTTGTGTCCACGCTAGTTGGGAATGAGCTGTTTGCTGGACTCTACAGTGACTATTGG GGCAGAGACTCGGCGATCTTCCGCAGCATGGGGAAGTTAGGCCATATTCGCACTGAGCATGACGATGAGC GGCTCCTGAAAGAACCAAAATTTGTAGGTTCATATATGATTCCTGATAACGAAGACCGAGATGACAACAA AATGTACTTTTTCTTTACTGAGAAGGCGCTGGAGGCGGAGAACAACGCCCACACGATCTACACCCGAGTG GGGCGGCTGTGCGTGAATGACATGGGAGGACAGAGAATCCTGGTGAACAAGTGGAGCACTTTCCTTAAAG CGCGGCTGGTTTGCTCAGTGCCGGGAATGAATGGAATCGACACATACTTTGACGAACTAGAGGATGTGTT TTTACTGCCGACCAGAGATCCTAAGAATCCAGTGATATTTGGACTGTTTAATACTACCAGCAATATATTT AGAGGCCATGCTGTATGTGTGTATCACATGTCAAGTATCCGGGAAGCCTTTAATGGCCCATATGCTCATA AAGAAGGCCCTGAATACCACTGGTCACTATATGAAGGAAAAGTCCCCTACCCAAGGCCTGGTTCCTGTGC CAGCAAAGTAAACGGAGGCAAGTATGGAACCACCAAAGATTACCCCGATGACGCCATCCGGTTCGCAAGG ATGCATCCTCTAATGTATCAGCCCATAAAACCTGTTCATAAAAAACCAATACTGGTAAAAACAGATGGAA AATACAACCTGAGGCAACTTGCCGTGGATCGGGTGGAAGCGGAGGATGGCCAGTATGACGTCTTATTTAT TGGGACAGACACAGGAATTGTGCTGAAAGTAATCACAATTTACAACCAAGAAACAGAGTGGATGGAGGAA GTCATTCTAGAGGAACTTCAAATATTCAAGGATCCAGCCCCTATCATTTCTATGGAAATTTCTTCAAAGA GACAACAGCTTTACATTGGATCAGCCTCTGCTGTGGCACAAGTCAGATTCCATCACTGCGACATGTATGG CAGTGCTTGTGCTGACTGCTGCCTGGCTCGAGACCCGTACTGTGCCTGGGATGGCATATCCTGCTCCAGG TACTACCCAACAGGTGCACACGCAAAGAGGAGGTTCCGCAGGCAGGACGTTCGGCATGGCAACGCCGCCC AACAGTGCTTTGGACAGCAATTTGTTGGAGACGCGTTGGACAGGACTGAAGAGAGGCTGGCTTATGGCAT AGAGAGCAACAGTACTCTGTTGGAATGCACCCCGCGATCACTACAAGCAAAAGTCATCTGGTTTGTACAG AAGGGACGCGACGTAAGAAAAGAAGAGGTGAAGACGGATGACAGAGTTGTCAAGATGGACTTGGGCTTGC TCTTCCTCAGAGTACGCAAGTCAGATGCAGGGACCTATTTTTGCCAGACAGTAGAACACAATTTTGTCCA TACTGTGCGTAAAATCACCTTGGAGGTGGTCGAAGAGCATAAAGTGGAGGGCATGTTTCATAAGGACCAT GAAGAGGAAAGACATCACAAGATGCCCTGCCCTCCCTTAAGCGGTATGTCTCAGGGGACAAAACCGTGGT ACAAGGAATTCTTGCAGCTGATTGGCTACAGCAACTTCCAGAGAGTGGAAGAATACTGCGAAAAGGTGTG GTGTACAGATAAGAAGAGGAAAAAGCTTAAAATGTCTCCCTCCAAGTGGAAGTATGCCAACCCCCAGGAA AAGAGGCTTCGCTCTAAAGCTGAGCACTTCCGCCTGCCCAGGCACACGCTGCTCTCCTGAGGGCGCCCTC TGCCGGCGGCTGAGGAACCTAGGATGGAAACATTTTTTTAAAGGGGGTTAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5357516 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:5357516 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:7178 same embryo
	EMAGE:7173 same embryo
	EMAGE:7174 same embryo
	EMAGE:7177 same embryo
	EMAGE:7176 same embryo
	EurExpress:euxassay_002631 same experiment
	MGI:4827946 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