EMAGE mouse gene expression spatial database

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EMAGE:15460

Idh3a isocitrate dehydrogenase 3 (NAD+) alpha ( MGI:1915084)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010648. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010648_01	euxassay_010648_02	euxassay_010648_03	euxassay_010648_04

euxassay_010648_05	euxassay_010648_06	euxassay_010648_07	euxassay_010648_08	euxassay_010648_09

euxassay_010648_10	euxassay_010648_11	euxassay_010648_12	euxassay_010648_13	euxassay_010648_14

euxassay_010648_15	euxassay_010648_16	euxassay_010648_17	euxassay_010648_18	euxassay_010648_19

euxassay_010648_20	euxassay_010648_21

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:

15460_wholemount_strong.wlz

15460_wholemount_moderate.wlz

15460_wholemount_weak.wlz

15460_wholemount_possible.wlz

15460_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:15460_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

thymus primordium

weak

regional

weak expression: see section 09 10 11 12 13

submandibular gland primordium

weak

regional

weak expression: see section 06 07 13 14 15 16

vibrissa

moderate

regional

moderate expression: see section 03 04 weak expression: see section 05 17 18

glossopharyngeal ix ganglion

weak

regional

weak expression: see section 06 07 16

trigeminal v ganglion

weak

regional

weak expression: see section 02 03 04 05 06 07 15 16 17 18 19 20

vagus x ganglion

weak

regional

weak expression: see section 07 15

ventral grey horn

weak

regional

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

heart ventricle

moderate

regional

moderate expression: see section 07 08 09 10 11 12 13 14 15 weak expression: see section 05 06

midgut

weak

regional

weak expression: see section 06 07 08 09 10 11 12 13 14

mandible

moderate

regional

moderate expression: see section 19 20 weak expression: see section 02 03 04 05 06 16 17 18

liver lobe

moderate

regional

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

orbito-sphenoid

weak

regional

weak expression: see section 02 03 18 19

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T31164
Entity Detected:	Idh3a, isocitrate dehydrogenase 3 (NAD+) alpha ( MGI:1915084)
Sequence:	sense strand is shown >T31164 TTGGAGGTCTTGGGGTGACTCCAAGTGGCAATATTGGAGCCAACGGTGTTGCCATCTTTGAATCGGTTCA TGGAACAGCCCCGGACATTGCAGGCAAGGACATGGCCAACCCCACGGCCCTCCTGCTTAGTGCTGTGATG ATGCTTCGCCACATGGGACTTTTTGACCATGCAGCAAAAATCGAGGCTGCATGTTTTGCTACAATTAAGG ATGGAAAGAGCTTAACAAAAGATCTGGGAGGCAACGCGAAGTGCTCTGACTTCACAGAAGAAATCTGTCG TAGAGTCAAAGACTTAGATTAGCACTCCTGCTGGTGGATTTGCTGCAGTCAGTCAATCACTCCAAAAGGA TACCCTGTAATCCTCCTTGAGGGCGCCCACCATTGGTTTGCTTGCTTCTTGACAGAGTACGTTTTTTGAA TCTGGCCTTTTCTTAACAAAACCCTTGCAATGGATGCACATGATGGCCCCAGGCCTTCATTCAAAGGGTT TTCCCAAGTGCTGGTTGTATTTATTGTCCGTCTGGTAAACCTTATTTTGTAAACTGTAAGTGAACTGTAT CATTTATCATTGTTAACCCATTTTACACTTCAGGCAAAATCATTTTCCTCAACTGTAAATATTCTGATAC AGAATTAATAAGAGAAGATATTTAACTTTTTAACAAAAGCCCTGGATTTTTGGTTTATGAAAAACAAACT GGGAATAAAACAGGGTTTTAACAATCGCACAAGATAACATTATTCTAATACTAATGGGTACAAAAGAAAT TTACTGGGAAAGTTCACAGCAAAAAAATGGTATATTTCTTAAAAATATGGAAATAAAGTATTTGTCCTAT ACATGAATTACTATTAATAAAAATGTAAGCTCCAAGAAATCCATAATGAATGATGTAATTTTGTTACTAC ATCGGTAATCCTTGTCAAGGCCCCGGATGCTCTCTGTG
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from the plasmid IMAGE:4166193), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 53978. Forward Primer - name:053978_F_IRAV45_g03_Idh3a, sequence:TTGGAGGTCTTGGGGTGA; Reverse Primer - name:053978_R_SP6_IRAV45_g03_Idh3a, sequence:ACACAGAGAGCATCCGGG. The reverse primer contains a 5' extension containing an SP6 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 SP6 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:15463 same embryo
	EMAGE:15462 same embryo
	EMAGE:15461 same embryo
	EMAGE:15458 same embryo
	EMAGE:15459 same embryo
	EurExpress:euxassay_010648 same experiment
	MGI:4825501 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