EMAGE mouse gene expression spatial database

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EMAGE:21460

Clmn calmin ( MGI:2136957)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_000901. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_000901_01	euxassay_000901_02	euxassay_000901_03	euxassay_000901_04

euxassay_000901_05	euxassay_000901_06	euxassay_000901_07	euxassay_000901_08	euxassay_000901_09

euxassay_000901_10	euxassay_000901_11	euxassay_000901_12	euxassay_000901_13	euxassay_000901_14

euxassay_000901_15	euxassay_000901_16	euxassay_000901_17	euxassay_000901_18	euxassay_000901_19

euxassay_000901_20	euxassay_000901_21	euxassay_000901_22	euxassay_000901_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:

21460_wholemount_strong.wlz

21460_wholemount_moderate.wlz

21460_wholemount_weak.wlz

21460_wholemount_possible.wlz

21460_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:21460_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

limb

moderate

regional

moderate expression: see section 3 4 5

hindlimb

moderate

regional

moderate expression: see section 6 1 2 3

foregut-midgut junction

strong

regional

strong expression: see section 5

thyroid gland

strong

homogeneous

strong expression: see section 1 2 6 7

telencephalon

moderate

homogeneous

moderate expression: see section 5 6 7 8 9 0 1 3 4 5 6 7 8 9 0 weak expression: see section 2

metencephalon

moderate

homogeneous

moderate expression: see section 5 6 7 8 9 0 1 2 3 4 5 6 7 8 9 0 1 2

nose

moderate

homogeneous

moderate expression: see section 8 9 0 1 2 4 5 6 7 8 9 0

nasal cavity olfactory epithelium

moderate

homogeneous

moderate expression: see section 1 2 3 4 5 6 7 8 9 0

hindgut

strong

regional

strong expression: see section 4

midgut

strong

regional

strong expression: see section 2 3 4 moderate expression: see section 7 8 9

lower jaw mesenchyme

moderate

regional

moderate expression: see section 0 1 2 3 4 5 6 7

kidney calyx

moderate

homogeneous

moderate expression: see section 3 0 1

kidney pelvis

moderate

homogeneous

moderate expression: see section 3 0

testis

moderate

homogeneous

moderate expression: see section 9 0 1 3 4 1 weak expression: see section 0

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T366
Entity Detected:	Clmn, calmin ( MGI:2136957)
Sequence:	sense strand is shown >T366 CTAATGGCTCTGTTAGAAGTCCTCTCTGGGCGAAATCTGCTGCATGAATACAAATCCTCATCACATCGTA TTTTTCGGTTGAACAACATAGCGAAAGCACTCAAGTTTCTGGAAGATAGCAATGTCAAGCTGGTTAGCAT CGATGCAGCGGAAATAGCGGACGGCAACCCCTCGCTGGTTCTCGGGCTGATATGGAACATCATTCTCTTC TTCCAGATAAAGGAGCTCACGGGCAACCTCAGCAGGAGTTCTCCATCTTCCAGCTTGTCACCGGGCTCTG GGGGCACCGACTCCGACTCTTCCTACCCACCCACCCCCACCACCGAGAGGAGTGTGGCAGTGGCAGTGAA AGACCAGAGGAAGGCCATCAAGACCCTGCTGTCATGGGTGCAGAGGAAAACCAGGAAGTATGGTGTGGCA GTCCAAGACTTTGCAGGCAGCTGGAGGAGTGGCCTGGCTTTCCTGGCTGTCATCAAAGCTATTGA
Notes:	The probe template was PCR amplified from IMAGE:3155880 using vector 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 T7 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:3155880 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:	EurExpress:euxassay_000901 same experiment
	EMAGE:21464 same embryo
	EMAGE:21459 same embryo
	EMAGE:21463 same embryo
	EMAGE:21461 same embryo
	EMAGE:21462 same embryo
	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