EMAGE mouse gene expression spatial database

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EMAGE:13975

Sema4g sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G ( MGI:1347047)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_007828. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_007828_01	euxassay_007828_02	euxassay_007828_03	euxassay_007828_04

euxassay_007828_05	euxassay_007828_06	euxassay_007828_07	euxassay_007828_08	euxassay_007828_09

euxassay_007828_10	euxassay_007828_11	euxassay_007828_12	euxassay_007828_13	euxassay_007828_14

euxassay_007828_15	euxassay_007828_16	euxassay_007828_17	euxassay_007828_18	euxassay_007828_19

euxassay_007828_20	euxassay_007828_21	euxassay_007828_22	euxassay_007828_23	euxassay_007828_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:

13975_wholemount_strong.wlz

13975_wholemount_moderate.wlz

13975_wholemount_weak.wlz

13975_wholemount_possible.wlz

13975_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:13975_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

forebrain

moderate

homogeneous

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

vibrissa

weak

regional

weak expression: see section 04 05 06 07 19 20 21 22 23

hindbrain

moderate

homogeneous

moderate expression: see section 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20 21

midbrain

moderate

homogeneous

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

glossopharyngeal ix ganglion

moderate

regional

moderate expression: see section 08 09 18 19 20

trigeminal v ganglion

moderate

regional

moderate expression: see section 04 05 06 07 08 09 17 18 19 20 21 weak expression: see section 22

vestibulocochlear viii ganglion

moderate

regional

moderate expression: see section 07 08 09 18 19 20

trigeminal v nerve

moderate

regional

moderate expression: see section 10 17

spinal cord

moderate

homogeneous

moderate expression: see section 08 09 10 11 12 13 14 15 16 17

cervico-thoracic ganglion

weak

regional

weak expression: see section 11 17

cervical ganglion

weak

regional

weak expression: see section 10 18

dorsal root ganglion

moderate

regional

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

neural retina

moderate

regional

moderate expression: see section 02 03 23 24 weak expression: see section 01 22

nasal cavity olfactory epithelium

moderate

regional

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

hindgut

moderate

regional

moderate expression: see section 12 13 14 15 16 17

rectum

moderate

regional

moderate expression: see section 11

midgut loop

moderate

regional

moderate expression: see section 04 05 06 07 08 09 10 11 12 13

liver left lobe

moderate

single cell

moderate expression: see section 01 02 03 04 05 06 07 08 09 10 11

liver right lobe

moderate

single cell

moderate expression: see section 12 13 14 15 16 17 18 19 20 21 22 23 24

bladder

strong

regional

Expression in the fundus region.

renal cortex

moderate

regional

moderate expression: see section 05 weak expression: see section 06 07 08 09 14 15 16 17 18

urethra of male

strong

regional

strong expression: see section 11 12

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T3130
Entity Detected:	Sema4g, sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G ( MGI:1347047)
Sequence:	sense strand is shown >T3130 TGGCCTCGAGCCAGATTCGGACGAGGGCCAACACTGCACTCAATGAGCCAGCTTCCCTCTTAGGGACCAA GTGATTGCTTCTCCTAGGCCAGAGCAGGAGGAAGTGATCTGCTATCTCACCTGGCACATGAAGCCCACTC CTGGAACTATGCAAAGGGCAGAGGCTGGGCGTGTGGATGCTTGGCTCCCATCCCTGTCCTACCTCACCAG GGCACTTTCAAGGTCCAAGGGCCTCAGATGTCTCCAGGCCCACATGGGACAATCAACCCTGACTGAGCCC CCCATTCCTCTTGGGTGAGGATGACTGTTATTTTTGTAGCTGAGAACGTGGAACCCCACGAGTTTTTACT GTCCTTCACCCATACCTCTCCCACCTCCACCCCACAATGAATGTATTTATTGTGAGAATGGCTGTACTTC TTCAGGAATGCCCCCACTCATCACCCAGGTGGGTGGAACAGGCATGTGATGGAATGGGGAGCCTGGGCTC TGCTCCTCCTGACATTGGCTAATAAATGCCCTCTTTCCCCACAAAAAANAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:1547597 using vector specific primers. Forward Primer - name:RZPD M13 forward, sequence:GCTATTACGCCAGCTGGCGAAAGGGGGATGTG; Reverse Primer - name:RZPD M13 reverse, sequence:CCCCAGGCTTTACACTTTATGCTTCCGGCTCG. Anti-sense probe was then transcribed from the PCR amplified template using T3 polymerase. EMAGE Editor's Note: the partial probe sequence indicated here was given by the EURExpress Consortium and has been checked using BLAST comparison against all available partial insert sequences of IMAGE:1547597 from NCBI. In cases where no BLAST hit was found (because the two sequence reads are found at opposing ends of the insert sequence), both end sequences were then checked against the appropriate cDNA RefSeq to ensure validity of the information.
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:13979 same embryo
	EMAGE:13978 same embryo
	EMAGE:13976 same embryo
	EMAGE:13980 same embryo
	EMAGE:13977 same embryo
	EurExpress:euxassay_007828 same experiment
	MGI:4827948 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