EMAGE mouse gene expression spatial database

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EMAGE:10536

Sc4mol sterol-C4-methyl oxidase-like ( MGI:1913484)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000744. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000744_01	euxassay_000744_02	euxassay_000744_03	euxassay_000744_04

euxassay_000744_05	euxassay_000744_06	euxassay_000744_07	euxassay_000744_08	euxassay_000744_09

euxassay_000744_10	euxassay_000744_11	euxassay_000744_12	euxassay_000744_13	euxassay_000744_14

euxassay_000744_15	euxassay_000744_16	euxassay_000744_17	euxassay_000744_18	euxassay_000744_19

euxassay_000744_20	euxassay_000744_21	euxassay_000744_22	euxassay_000744_23	euxassay_000744_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:

10536_wholemount_strong.wlz

10536_wholemount_moderate.wlz

10536_wholemount_weak.wlz

10536_wholemount_possible.wlz

10536_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:10536_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

mesenchyme

weak

regional

weak expression: see section 01 05 06 07 08 09 12 13 14 15 16 17 18 19 22 24

adrenal gland

moderate

homogeneous

moderate expression: see section 08 09 10 15 17 weak expression: see section 18 19

foregut-midgut junction

moderate

homogeneous

moderate expression: see section 12 13 14 15 16 17 18

vibrissa

weak

regional

weak expression: see section 07 08 09 22 23

olfactory cortex ventricular layer

moderate

homogeneous

moderate expression: see section 17 18 19

telencephalon ventricular layer

moderate

homogeneous

moderate expression: see section 05 06 07 08 09 10 17 18 19 20 21 22 23 24 weak expression: see section 01 02 03 04 11 12 13 14 15 16

medulla oblongata basal plate ventricular layer

weak

homogeneous

weak expression: see section 10 11 13 14 15

metencephalon rest of alar plate ventricular layer

weak

graded

weak expression: see section 02 03 04 20 21 22 not examined expression: see section 15 16 17 18 19

pons ventricular layer

weak

homogeneous

weak expression: see section 05 06 07 08 09 10 11 13 14 15 16 17 18 19

midbrain ventricular layer

weak

homogeneous

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

facial vii ganglion

weak

homogeneous

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

inferior glossopharyngeal ix ganglion

weak

homogeneous

weak expression: see section 07 19

superior glossopharyngeal ix ganglion

weak

homogeneous

weak expression: see section 06 07 19

trigeminal v ganglion

weak

homogeneous

weak expression: see section 03 04 05 06 07 08 09 18 19 20 21 22 23

vagus x ganglion

weak

homogeneous

weak expression: see section 18

inferior vagus x ganglion

weak

homogeneous

weak expression: see section 09 17

superior vagus x ganglion

weak

homogeneous

weak expression: see section 08

dorsal root ganglion

moderate

regional

moderate expression: see section 07 08 09 10 11 17 18 weak expression: see section 16

nasal cavity olfactory epithelium

weak

regional

weak expression: see section 09 10 11 12 13 14 16 17 18 19 20 21

stomach

moderate

homogeneous

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

hindgut

moderate

homogeneous

moderate expression: see section 15

midgut

moderate

homogeneous

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

meckel's cartilage

weak

regional

weak expression: see section 03 04 05 06 07 08 09 10 11 12 13 19 20 21 22 23 24

lower jaw incisor

moderate

regional

moderate expression: see section 17 weak expression: see section 18

lower jaw molar

moderate

regional

moderate expression: see section 17 weak expression: see section 18

upper jaw incisor

moderate

regional

moderate expression: see section 17 weak expression: see section 18

upper jaw molar

moderate

regional

moderate expression: see section 17 weak expression: see section 18

liver lobe

weak

homogeneous

weak 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

kidney calyx

weak

regional

weak expression: see section 07 08 09 10 11 17 18 19 20 21 22

testis

moderate

regional

moderate expression: see section 05 06 07 08 20 21 22 weak expression: see section 23

chondrocranium

moderate

regional

moderate expression: see section 05 06 23 24 weak expression: see section 02 03 04

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T960
Entity Detected:	Sc4mol, sterol-C4-methyl oxidase-like ( MGI:1913484)
Sequence:	sense strand is shown >T960 CCTCGAGCCTGTTGGCCTACTGGGACTTGCGCTTAGACCGCTGTCTGTCGCGGGGACGCCAGGAATAAAA GGTCCCTCGCAGAGATTTGAAAATGGCCACAAACAAAAGTGTTGGCGTGTTCAGCTCTGCATCCCTGGCT GTGGAGTATGTGGACTCACTGTTGCCGGAGAATCCTCTGCAGGAGCCCTTTAAGAATGCTTGGGTCTACA TGTTGGACAACTATACAAAGTTCCAGATCGCAACCTGGGGCTCCCTGATAGTTCACGAAGCCATCTATTT CTTGTTCTCTTTACCTGGATTCCTATTCCAGTTTATACCTTACATGAGAAAGTACAAGATTCAAAAGGAT AAACCAGAAACCTTCGAAGGCCAGTGGAAGTGTTTGAAAAAAATTCTATTTAATCATTTTTTTATCCAGT TGCCTCTGATTTGTGGAACATACTATTTTACAGAGTTTTTCAATATTCCTTATGATTGGGAAAGAATGCC AAGATGGTACTTAACTTTGGCAAGGTGTTTGGGCTGTGCAGTCATTGAGGACACCTG
Notes:	The probe template was PCR amplified from IMAGE:1970600 using vector specific primers. Forward Primer - name:T7-pME18S-FL3-fw, sequence:CGTAATACGACTCACTATAGGGCCTTCTGCTCTAAAAGCTGCG; Reverse Primer - name:T3-pME18S-FL3-rv, sequence:CAAATTAACCCTCACTAAAGGGCGACCTGCAGCTCGAGCAC. 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:1970600 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:10538 same embryo
	EMAGE:10540 same embryo
	EMAGE:10539 same embryo
	EMAGE:10537 same embryo
	EMAGE:10535 same embryo
	EurExpress:euxassay_000744 same experiment
	MGI:4827882 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