EMAGE mouse gene expression spatial database

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EMAGE:10572

Rfx5 regulatory factor X, 5 (influences HLA class II expression) ( MGI:1858421)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000805. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000805_01	euxassay_000805_02	euxassay_000805_03	euxassay_000805_04

euxassay_000805_05	euxassay_000805_06	euxassay_000805_07	euxassay_000805_08	euxassay_000805_09

euxassay_000805_10	euxassay_000805_11	euxassay_000805_12	euxassay_000805_13	euxassay_000805_14

euxassay_000805_15	euxassay_000805_16	euxassay_000805_17	euxassay_000805_18	euxassay_000805_19

euxassay_000805_20	euxassay_000805_21	euxassay_000805_22	euxassay_000805_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:

10572_wholemount_strong.wlz

10572_wholemount_moderate.wlz

10572_wholemount_weak.wlz

10572_wholemount_possible.wlz

10572_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:10572_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

medulla oblongata basal plate

moderate

regional

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

facial vii ganglion

strong

homogeneous

strong expression: see section 04 05 06 07 21 22

inferior glossopharyngeal ix ganglion

strong

homogeneous

strong expression: see section 19 20 moderate expression: see section 08

superior glossopharyngeal ix ganglion

strong

homogeneous

strong expression: see section 19 20 moderate expression: see section 08

trigeminal v ganglion

strong

homogeneous

strong expression: see section 04 05 06 07 17 18 19 20 21 22 23 moderate expression: see section 08

vagus x ganglion

strong

homogeneous

strong expression: see section 09 10 17 18 not examined expression: see section 22

vestibulocochlear viii ganglion cochlear component

strong

homogeneous

strong expression: see section 07 19 20 moderate expression: see section 08

vestibulocochlear viii ganglion vestibular component

strong

homogeneous

strong expression: see section 05 06 07 18 19 20 21 22 moderate expression: see section 08

ventral grey horn

moderate

regional

moderate expression: see section 11 17

dorsal root ganglion

strong

homogeneous

strong expression: see section 09 10 11 12 17 18 19

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T3872
Entity Detected:	Rfx5, regulatory factor X, 5 (influences HLA class II expression) ( MGI:1858421)
Sequence:	sense strand is shown >T3872 TCCCAGAANTCCCCAGATGGAGGCTTGGGTGGAGGATGGAATTGTTGCTGGGGAGCAGCTAACGACCGCT GGGTGCGGTTTAGCTTGCTAGGCTGGGATGAGCTGGACTGCTGCCTGTCCCCTGAACCTTGCATCTCCCT CAGTGCAGCTCTAACTTTTATCTCATTGTAGCCTCGGAAGGACAGAGAAGGAAGCCATTCTCGTTAGTCT CTTCATTCTTACAGGACAGCTTTCGCACCTCTGTCTCCCAGAACAAGCTCCTTTTAGGGTCTGAATCTTA AACTTTCTCCGCAGCCGTGTTTCCTACCTCCCAACCTAGTGTCACCTTCTCAGAGGATATGAATGCCCCT CCCAAGCCATTTCATTACATTACCTTCATTCTGCAGCCACCAGATGTCATGCACTTGTCACATGTGTCAG GACCTAGCCAGGACTGTGGGCTTAGGCTGGATTAACAGATGCTGCGAGTCAGGGAGCACCTGCAGGAAGG ATGCAGACGCTCCAGCTGTGTCCTTGGGAACAGCAGGAAACCAGCCCATATTAATCAA
Notes:	The probe template was PCR amplified from IMAGE:944732 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:944732 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:10573 same embryo
	EMAGE:10574 same embryo
	EMAGE:10575 same embryo
	EurExpress:euxassay_000805 same experiment
	MGI:4827707 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