EMAGE mouse gene expression spatial database

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EMAGE:13795

Sox1 SRY-box containing gene 1 ( MGI:98357)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_019565. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_019565_01	euxassay_019565_02	euxassay_019565_03	euxassay_019565_04

euxassay_019565_05	euxassay_019565_06	euxassay_019565_07	euxassay_019565_08	euxassay_019565_09

euxassay_019565_10	euxassay_019565_11	euxassay_019565_12	euxassay_019565_13	euxassay_019565_14

euxassay_019565_15	euxassay_019565_16	euxassay_019565_17	euxassay_019565_18	euxassay_019565_19

euxassay_019565_20	euxassay_019565_21	euxassay_019565_22	euxassay_019565_23	euxassay_019565_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:

13795_wholemount_strong.wlz

13795_wholemount_moderate.wlz

13795_wholemount_weak.wlz

13795_wholemount_possible.wlz

13795_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:13795_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

hypothalamus ventricular layer

strong

homogeneous

strong expression: see section 09 10 11 12 13 14

diencephalon lateral wall ventricular layer

strong

homogeneous

strong expression: see section 09 10 11 12 13

olfactory cortex ventricular layer

strong

homogeneous

strong expression: see section 08 09 10 14 15

telencephalon ventricular layer

strong

homogeneous

strong 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

medulla oblongata basal plate ventricular layer

strong

regional

strong expression: see section 07 08 09 10 11 12 15 16 moderate expression: see section 13 14

rest of cerebellum ventricular layer

strong

regional

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

pons ventricular layer

strong

regional

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

midbrain ventricular layer

strong

homogeneous

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

ventral grey horn

moderate

regional

moderate expression: see section 14 15 16

spinal cord ventricular layer

moderate

regional

moderate expression: see section 13 14

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T55183
Entity Detected:	Sox1, SRY-box containing gene 1 ( MGI:98357)
Sequence:	sense strand is shown >T55183 CCCTGTGAAATCGAAACGTGCTAATTTTATATGCATGTTTTATGAGTTCAAAATACAATTAGCAATCTGT TGGAGGAGAAATTATCTGCAGGGCCCAAGAGTAAGGAAATCCCACCAAGCGGAGTGCAGCGTTTCCGTGA CTTTATTCGGTGGGGAAAGAGAAATCTTAAACTCCATAGATTATTTTGTAGAGTTCAAGTTGACACAGAA GGGAAGTAATTACAAAATGCTTCCTAATGGTTTAGCGTTTTAACTGCCATGGCCCTGGCTTATTTTTTTT TGCATTTCTTTCCTGTGGTTCTGCCTTTTGCATACTGTAGCAGTTTTGAGGCAGCTGGGTCTCAGAAGGA GGATGGGTTGTGCTCAGTGGTGGGACAAGGCCAAGGATAGGGACAACAGCCACCGCCAAGACAGCGTGCC TTTGATTTCTCTGTAATTGGAATTGTAAGTGAAATTATCTTCCTGTGCTTCAAGGAAGCAATCCTGACCC AGACCTCACCACCACAGAGTCTCTCACCCAGGTCTTATCCCATCCCCTCCCGATTCCTCTCTGGGAAAAT CCAACATAATTCTACCGATTTTCTTACACACACACACACACACACACACACACACACTCTCTCCTGTGTG AACCGGGATGCAGATTGCCAGGGAATGTAAACACAGAATGCTGTGTTTATCATTCCTGACCAGATCTTGA GGTTGTTTGATGCTTTAAATATTTTTAATTATATTTTTTCTAGGTGTTTATTGGTATATTGCAGGTCCCC CCCCCCTGGAATTTAAAGTTCCCTGTAAAACTTTGTCTTCAAGTAATCTGACAGCATTAAATATTGCATT TAAAAGTTATACTGTAGCAAATATGTTTTAAAATTAATCATGACATTAGAATGAAATTCTATTTTTGAAG GAAATTTTCTTTAAGTCCAGATGGGGAATGATACTATTTTCAGCATCCTTTCCCCTGATTTTTTCCCAAT TTCTTTTCTTGGAATGAATATGGACTAGCCATTCAAAAGTGGACTTAATCTAGCAATTCAGTAAGACCAG AGCTCAACCTACATTGG
Notes:	The probe template was PCR amplified from E14.5 mouse embryo cDNA using gene specific primers. Forward Primer - name:unspecified, sequence:CCCTGTGAAATCGAAACGTG; Reverse Primer - name:unspecified, sequence:CCAATGTAGGTTGAGCTCTGG. The reverse primer contains a 5' extension containing an unspecified RNA polymerase binding site (this extension is not shown in the primer sequence listed here). Anti-sense probe was transcribed from the PCR amplified template using unspecified polymerase.
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:13796 same embryo
	EMAGE:13794 same embryo
	EurExpress:euxassay_019565 same experiment
	MGI:4828386 same experiment
	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