EMAGE mouse gene expression spatial database

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EMAGE:12746

Pdlim5 PDZ and LIM domain 5 ( MGI:1927489)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_011640. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_011640_01	euxassay_011640_02	euxassay_011640_03	euxassay_011640_04

euxassay_011640_05	euxassay_011640_06	euxassay_011640_07	euxassay_011640_08	euxassay_011640_09

euxassay_011640_10	euxassay_011640_11	euxassay_011640_12	euxassay_011640_13	euxassay_011640_14

euxassay_011640_15	euxassay_011640_16	euxassay_011640_17	euxassay_011640_18	euxassay_011640_19

euxassay_011640_20	euxassay_011640_21	euxassay_011640_22	euxassay_011640_23	euxassay_011640_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:

12746_wholemount_strong.wlz

12746_wholemount_moderate.wlz

12746_wholemount_weak.wlz

12746_wholemount_possible.wlz

12746_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12746_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

hand mesenchyme

moderate

regional

moderate expression: see section 04 05

foot mesenchyme

moderate

regional

moderate expression: see section 04 05 06 24

submandibular gland primordium

weak

regional

weak expression: see section 09 10 11 18 19 20

hypothalamus ventricular layer

strong

regional

strong expression: see section 12 13 14 moderate expression: see section 15

diencephalon lateral wall ventricular layer

strong

regional

strong expression: see section 12 13 14 moderate expression: see section 11

lateral ventricle choroid plexus

moderate

regional

moderate expression: see section 06 07 15 16 17 18 19 weak expression: see section 08 09 10 11 20

medulla oblongata floor plate

moderate

regional

moderate expression: see section 12 13

metencephalon floor plate

moderate

regional

moderate expression: see section 12 13

metencephalon part of 4th ventricle choroid plexus

moderate

regional

moderate expression: see section 06 07 14 15 16 17 18 19 weak expression: see section 08 09 10 11 20

midbrain ventricular layer

moderate

regional

moderate expression: see section 11 12 13

alar columns

moderate

regional

moderate expression: see section 13

dorsal grey horn

moderate

regional

moderate expression: see section 14 15

ventral grey horn

moderate

regional

moderate expression: see section 13 14 15

esophagus

moderate

regional

moderate expression: see section 14

stomach

moderate

regional

moderate expression: see section 06 weak expression: see section 07 08 09 10 11

midgut

strong

regional

strong expression: see section 15 16 17 18 moderate expression: see section 13 weak expression: see section 09 10

bladder

weak

regional

weak expression: see section 14 15 16

metanephros

weak

regional

weak expression: see section 08 09 10 11 18 19 20 21 22

urethra of male

weak

regional

weak expression: see section 14 15 16

trachea

moderate

regional

moderate expression: see section 14 15

axial skeleton

moderate

regional

moderate expression: see section 15 16 weak expression: see section 13

clavicle

weak

regional

weak expression: see section 11 18

axial skeleton tail region

moderate

regional

moderate expression: see section 14 15 16 weak expression: see section 11 12 13

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T31692
Entity Detected:	Pdlim5, PDZ and LIM domain 5 ( MGI:1927489)
Sequence:	sense strand is shown >T31692 GTACAGGGGCGTCTGTGGGGCCTCCCCAGCCAAGTGACCAAGACACACTTGTGCAGAGAGCGGAACACAT TCCAGCGGGCAAGCGGACCCCCATGTGTGCCCACTGCAACCAAGTTATCAGGGGACCTTTTCTTGTGGCT CTGGGGAAGTCCTGGCATCCAGAAGAATTTAACTGTGCTCATTGCAAAAACACAATGGCCTACATAGGCT TTGTAGAGGAGAAGGGAGCACTGTACTGTGAGCTATGCTATGAGAAGTTCTTTGCTCCTGAATGTGGCCG GTGCCAAAGGAAGATCCTTGGAGAAGTCATCAATGCTTTGAAGCAGACCTGGCATGTGTCCTGTTTTGTG TGTGTGGCCTGTGGAAAACCCATTCGTAATAATGTTTTCCACTTGGAAGATGGCGAGCCCTACTGTGAGA CAGACTACTACGCCCTTTTTGGAACAATATGTCGTGGATGTGAATTCCCCATAGAGGCTGGTGACATGTT CCTGGAAGCTCTGGGATACACTTGGCATGATACTTGCTTTGTGTGCTCTGTGTGTTGTGAAAGTTTGGAA GGGCAGACATTTTTCTCCAAGAAGGACAAGCCACTTTGCAAAAAACATGCTCATTCTGTGAATTTTTGAA AATCAGTGGTTCCAGGAAAGAGAAGAAATTTGAAGAAAAAGCAAAATCAAAATTACCATTTAATTTTTAG TTTAATATTTATATGGAGTTCTCAAATAGTAATAGCCCTGAAGGCACAGACTCCAACTTTAAAAATCAAA TCTGAGAAAACGTTTGGTTTAGAAAGCCACAGACAGTTTGGCATTTGTTATGAATTGCCAGTATTTTCTG CACATGAAATAGCTTTTATAAAAATCAATTTCCTGGCTATTAAGTTCATCTTAGAATAAATTAGCAAAGT ATTACATTTTAGAATTAAAATCCCTAGCCTCTATGCTGAAATAATACTTTGTGGGGCGGGT
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:4457868), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 33054. Forward Primer - name:033054_F_IRAV81-84_I06_1110001A05Rik, sequence:GTACAGGGGCGTCTGTGG; Reverse Primer - name:033054_R_SP6_IRAV81-84_I06_1110001A05Rik, sequence:TACCCGCCCCACAAAGTA. 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:12745 same embryo
	EMAGE:12747 same embryo
	EurExpress:euxassay_011640 same experiment
	MGI:4827135 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