EMAGE mouse gene expression spatial database

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EMAGE:10506

Plod1 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 ( MGI:99907)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000884. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000884_01	euxassay_000884_02	euxassay_000884_03	euxassay_000884_04

euxassay_000884_05	euxassay_000884_06	euxassay_000884_07	euxassay_000884_08	euxassay_000884_09

euxassay_000884_10	euxassay_000884_11	euxassay_000884_12	euxassay_000884_13	euxassay_000884_14

euxassay_000884_15	euxassay_000884_16	euxassay_000884_17	euxassay_000884_18	euxassay_000884_19

euxassay_000884_20	euxassay_000884_21	euxassay_000884_22	euxassay_000884_23	euxassay_000884_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:

10506_wholemount_strong.wlz

10506_wholemount_moderate.wlz

10506_wholemount_weak.wlz

10506_wholemount_possible.wlz

10506_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:10506_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

not examined

regional

not examined expression: see section 18

hypothalamus ventricular layer

moderate

regional

moderate expression: see section 12 13 14 15

diencephalon lateral wall ventricular layer

moderate

regional

moderate expression: see section 13 14 15

medulla oblongata basal plate ventricular layer

moderate

regional

moderate expression: see section 12 13 14 15

pons ventricular layer

moderate

regional

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

midbrain ventricular layer

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16 17

skeleton

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 22 23 24

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T2300
Entity Detected:	Plod1, procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 ( MGI:99907)
Sequence:	sense strand is shown >T2300 TGGCCTCGAGCCAGATCGGATCCTTGGGTGGACGAGCTGGTGGAGGAGATGGAACACTATGGCCAGTGGT CTCTGGGTGATAATAAGGACAACCGGATCCAGGGTGGCTACGAAAACGTGCCCACTATCGACATCCATAT GAACCAGATCACCTTCGAGCGGGAGTGGCACAAGTTCCTGGTGGAGTATATCGCCCCCATGACAGAGAAG CTGTACCCTGGCTACTACACTAGGGCCCAGTTTGATCTAGCCTTTGTCGTCCGCTATAAGCCTGATGAGC AGCCTTCCTTGATGCCCCACCATGACGCCTCTACCTTCACCGTCAACATAGCCCTGAACAGGGTTGGGGA AGATTATGAGGGCGGAGGTTGCCGATTTCTGCGCTACAACTGCTCCGTGAGGGCACCAAGGAAGGGCTGG GCCCTCCTGCACCCCGGGCGGCTCACACACTATCATGAGGGGCTTCCTACTACCAAGGGCACGCGCTACA TTGCTGTGTCTTTCGTCGATCCCTAACTGCCCAGTGCCTGCCTCTGTTCGACCTATCTCATCGTTGACAA CCAC
Notes:	The probe template was PCR amplified from IMAGE:1122946 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:1122946 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:10507 same embryo
	EurExpress:euxassay_000884 same experiment
	MGI:4827279 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