EMAGE mouse gene expression spatial database

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EMAGE:11041

Ifrd1 interferon-related developmental regulator 1 ( MGI:1316717)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_003205. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_003205_01	euxassay_003205_02	euxassay_003205_03	euxassay_003205_04

euxassay_003205_05	euxassay_003205_06	euxassay_003205_07	euxassay_003205_08	euxassay_003205_09

euxassay_003205_10	euxassay_003205_11	euxassay_003205_12	euxassay_003205_13	euxassay_003205_14

euxassay_003205_15	euxassay_003205_16	euxassay_003205_17	euxassay_003205_18	euxassay_003205_19

euxassay_003205_20	euxassay_003205_21	euxassay_003205_22	euxassay_003205_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:

11041_wholemount_strong.wlz

11041_wholemount_moderate.wlz

11041_wholemount_weak.wlz

11041_wholemount_possible.wlz

11041_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:11041_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

axial musculature

moderate

regional

moderate expression: see section 05 06 07 18 19 20 21 weak expression: see section 04

vibrissa

moderate

regional

moderate expression: see section 19 20 weak expression: see section 05 06

telencephalon ventricular layer

weak

homogeneous

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

glossopharyngeal ix ganglion

weak

regional

weak expression: see section 07 17

trigeminal v ganglion

weak

regional

weak expression: see section 04 05 06 07 08 09 16 17 19 20 21

vagus x ganglion

weak

regional

weak expression: see section 08 16

vestibulocochlear viii ganglion

weak

regional

weak expression: see section 07 17

cervico-thoracic ganglion

weak

regional

weak expression: see section 10

cervical ganglion

moderate

regional

moderate expression: see section 16 weak expression: see section 09

thoracic ganglion

moderate

regional

moderate expression: see section 14 15

dorsal root ganglion

weak

regional

weak expression: see section 08 09 10 11 12 13 16 17

lower jaw incisor

moderate

regional

moderate expression: see section 12 15 weak expression: see section 11 13

lower jaw molar

moderate

regional

moderate expression: see section 17 18 weak expression: see section 07

upper jaw incisor

moderate

regional

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

upper jaw molar

moderate

regional

moderate expression: see section 16 17 18 weak expression: see section 07

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T5444
Entity Detected:	Ifrd1, interferon-related developmental regulator 1 ( MGI:1316717)
Sequence:	sense strand is shown >T5444 GTATCGTTTCCGCTCGCAGCTCTTCACGGGGATTTCTGCTGCTGCTGCTGCCGCTTCTCACCCGCGCCGC TCCTCGCCTCTCTTGTTAGCCCGAGACTCGCCTCTCAGCCGCCCGCCGCACAGACGCACGAGTAGACAGT GCAGCTCCATCGGCTGATCCTCGCTGAGCTCCAAGTGTAGGCGGCACCGGGCGGCCCACGATGCCGAAGA ACAAGAAGCGGAACGCTCCCCACCGCGGTGGCGGGGGTGGCGGCGGCTCCGGGGCAGCGACGTCGGCGGC CACGGCAGGTGGCCCGCATCGGACTGTTCAACCTTTCAGTGATGAAGATGCATCCATTGAAACAATGAGC CACTGCAGCGGCTATAGCGATCCTTCCAGTTTTGCGGAGGATGGGCCAGAAGTTCTTGATGAGGAAGGAA CTCAAGAAGACTTAGAGTACAAGTTGAAGGGATTAATTGACCTAACCCTTGATAAGAGTGCGAAGACAAG ACAGGCAGCTCTTGAAGGTCTTAAGAATGCACTGTCTTCAAAAGTGCTGTATGAGTTTGTTCTCGAGAGA AGAATGACTTTAACTGATAGCATTGAGCGCTGTCTGAAAAAAGGAAAGAGTGACGAGCAGCGTGCGGCTG CAGCTGTCGCATCTGTTCTTTGTATTCAGCTGGGCCCTGGATTTGAGAGTGAAGAGATTTTAAAGACTCT TGGACCAATCCTAAAAAAAATAATTTGTGATGGAGCAGCTAGTATCCAGGCTAGGCAGACTTGTGCAACT TGCTTTGGTGTTTGCTGTTTTATTGCCACAGATGATATCACTGAGCTGTATTCAACTCTGGAATGCTTCG AAAATATCTTCACCAAGTCCTATCTTAAAGAGAAAGACACTAATGTTACTTGCAGCACTCCAAATACAGT GCTTCACATCAGCTCGCTTCTCGCGTGGACATTATTACTGACCATATGCCCAATCAATGAGGTGAAGAAA AAGCTGGAGCTGCATTTCCATAAACTTCCAAGCCTCCTTTCTTGTGATGATGTAAACATGAGAATTGCTG CTGGCGAATCTTTGGCACTTCTGTTTGAATTGGCCAGAGGAATGGAGAGTGACTTTTTTTATGAAGATAT GGATTCTTTGACCCAGATGCTCCGGGCTCTGGCTACAGATGGAAATAAACACCGTGCCAAAGTGGACAAG AGAAAGCAGCGGTCTGTCTTCAGAGACGTTCTGAGGGCTGTGGAGGAACGGGATTTTCCAACAGAAACTG TTAAATTTGGTCCTGAGCGCATGTATATTGATAGCTGGGTCAAAAAACATACCTATGACACGTTTAAAGA GGTTCTTGGATCAGGGATGCAGTACCACTTGCAGACAAATGAATTCCTTCGAAATGTATTTGAGCTTGGA CCCCCTGTGATGCTTGATGCTGCAACACTTAAAACCATGAAGATTTCTCGTTTTGAAAGGCATTTATATA ACTCTGCAGCTTTCAAAGCTCGAACAAAAGCTCGAAGCAAATGCCGAGATAAGAGAGCAGATGTTGGAGA ATTCTTGTAGATGTCTGAATTTGATGGCTGTTTTCTAATCTCTTCCTTTATTATTATTTTTGCTACTTCT AATGTATATAAGCTTTTAGAGACAGTTTTTTATCTTGGTCAACTTAAATAATTTTTGATGTAGGGGTGGG TTGTATTTTAATTTAATGTACAGTGTTACAAATTAATGAGTTCTTTATTCTCTGTAAAAATAACTGGTAA CCACAAATAAAGTGTTTGTGATGTTTGGTCGTAAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5369100 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:5369100 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:11040 same embryo
	EMAGE:11039 same embryo
	EMAGE:11038 same embryo
	EMAGE:11042 same embryo
	EurExpress:euxassay_003205 same experiment
	MGI:4825527 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