EMAGE mouse gene expression spatial database

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EMAGE:4400

Scube3 signal peptide, CUB domain, EGF-like 3 ( MGI:3045253)
TS17 (10.5 dpc)
in situ hybridisation

Data Images


Fig1E. Copyright: Reprinted with permission from Elsevier from [doi:10.1016/j.modgep.2006.12.004] Gene Expr Patterns 7: 630-634, Haworth K; Smith F; Zoupa M; Seppala M; Sharpe PT; Cobourne MT, Expression of the Scube3 epidermal growth factor-related gene during early embryonic development in the mouse. Copyright 2007

Expression pattern clarity:
Find spatially similar wholemount expression patterns:

Notes:

Image annotations: ba2 - second branchial arch; dd - dorsal dermomyotome; lb - limb bud; lnp - lateral nasal process; md - mandibular process (of Wrst branchial arch); mnp - medial nasal process; mx - maxillary process (of Wrst branchial arch); ov - otic vesicle; vd - ventral dermomyotome.

Expression Pattern Description

Spatial Annotation:

Annotation colour key:

	strong
	moderate
	weak
	possible
	not detected

wholemount mapping

Download individual expression domains:

4400_wholemount_strong_3D_1.wlz

4400_wholemount_moderate_3D_1.wlz

4400_wholemount_weak_3D_1.wlz

4400_wholemount_notDetected_3D_1.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:4400_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

branchial arch

detected

regional

Expression is described in the ectoderm and mesenchyme.

limb

detected

neural tube

detected

otocyst

detected

fronto-nasal process

detected

regional

Expression is in the mesenchyme.

trunk somite

detected

regional

Expression is in the dorsal and ventral dermomyotome.

tail somite

detected

regional

Expression is in the dorsal and ventral dermomyotome.

hindbrain

detected

regional

Expression is in the ventral rhombencephalon.

Annotation Validation:

EMAGE Editor

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	MGI:1988048
Entity Detected:	Scube3, signal peptide, CUB domain, EGF-like 3 ( MGI:3045253)
Sequence:	sense strand is shown >MGI:1988048 CGACTGTGTCAACATCCCTGGTAATTACCGGTGTACCTGCTACGACGGATTTCACCTGGCACATGACGGA CACAACTGTCTGGATGTGGATGAGTGTGCAGAGGGCAACGGTGGCTGCCAGCAGAGCTGTGTCAACATGA TGGGCAGCTACGAGTGCCATTGCAGAGATGGCTTCTTCCTCAGTGACAACCAGCACACCTGTATCCAGCG GCCAGAAGAAGGAATGAACTGCATGAACAAGAACCACGGCTGTGCCCACATTTGCCGGGAGACTCCCAAG GGGGGCATTGCCTGTGAATGCCGCCCTGGCTTCGAGCTCACCAAGAACCAACGGGACTGTAAATTGACCT GCAACTATGGTAATGGCGGCTGCCAGCACACCTGCGATGACACGGAGCAGGGTCCTCGGTGCGGCTGCCA CGTCAAGTTTGTGCTCCACACCGACGGGAAGACATGCATTGAAACCTGTGCTGTCAACAACGGAGGCTGC GACAGTAAGTGCCATGATGCAGCGACCGGAGTCCACTGCAGCTGTCCTGTGGGTTTCATGCTGCAGCCAG ACAGAAAGACCTGCAAAGATATAGACGAGTGCCGCTTAAACAACGGGGGCTGTGACCACATCTGCCGCAA CACAGTGGGCAGCTTCGAGTGCAGCTGCAAGAAGGGCTACAAGCTTCTCATCAACGAAAGGAGCTGCCAG GATATAGATGAGTGCTCCTTCGACCGAACCTGTGACCACATGTGTGTCAACACCCCGGGGAGCTTCCAGT GTCTCTGTCATCGTGGCTACCTTCTATATGGTGTCACTCACTGCGGGGATGTGGACGAATGTAGCATCAA TAAGGGAGGCTGCCGCTTTGGCTGCATCAACACCCCAGGCAGCTATCAGTGTACCTGCCCAGCAGGCCAG GGCCGCCTTCACTGGAACGGGAAGGATTGCACAGAGCCAGTGAAGTGTCAGAGCAGTCTTGGAGCCTCAA AAGCCATGCTTAGCTGCAATCGCTCGGGCAAGAAGGATACTTGTGCCCTGACCTGTCCCTCCCGGGCCCG GTTCTTGCCAGAGTCAGAGAACGGTTTCACCGTGAGCTGTGGTACCCCGAGCCCTAAAGCTGCTCCAGCC CGAGTGATCCACTCTGGGAACAGCACCGTCTCCAGCTCCTGCCATGAGGCTGCAGTGCTGCCAGTCAAGC AGAGAGCCTCCTTCAAGATCAAGGATGCCAAATGTCGCCTGCATCTGCGAAACAAAGGCAAAGCCGAGGA GGCCAGCAGGATCCTGGGGCCAGGTAGTGTCCCCTGCTCTGACTGCCTGGTCACTTTCATCCACCTTAAG TGTGACTCTTCTCGGAAGGGCAAGGGCAGGCGGGCCCGGACCCCCCCAGGCAAGGAGGTTACCCGGCTCA CCCTGGAATTGGAAGCTGAGGTCAGAGCAGAAGAAACGACAGCTGGCTGTGGGCTGCCTTGCCTCCGACA GCGGATGGAACGGAGGCTGAAAGGGTCCCTGAAGATGCTCAGAAAGTCCATCAACCAAGACCGGTTCCTG CTGCGTCTGGCAGGCCTTGACTATGAGCTAGCCCACAAGCCAGGCCTGGGAGCTGGGGACCGAGCAGAGC TGGTGGAGGTCTGCCGACCTGGGCAGCACCGAGCAGGCACCAAGTGTGGTCAGTGCCCACCTGGCCACCA TTCAGGAGATGGGTTTAAGCCCTGCCAGCCATGCCCCCGGGGCACCTATCAGCCTGAAGCAGGGCGAACC CTGTGCTTCCCCTGTGGCGGAGGCCTCACCACCAAGCATGAGGGGGCAGTCTCCTTCCAGGACTGCGACA CCAAAGTCCAGTGCTCCCCGGGCCACTACTATAACACTAGCATCCATCGCTGTATCCGCTGTGCTGTGGG CTCCTACCAGCCAGATTTCCGTCAGAACTTCTGCACCCGCTGCCCAGGAAATACAAGCACTGACTTTGAT GGCTCGACCAGTGTGGCCCAGTGCAAGAATCGGCAGTGTGGCGGGGAGCTAGGTGAGTTCACTGGCTACA TCGAGTCTCCCAACTACCCGGGCAACTACCCGGCCGGTGTGGAGTGCGTCTGGAACATCAACCCCCCACC CAAGCGCAAGATCCTCATCGTGGTCCCCGAGATCTTCCTGCCCTCCGAGGATGAGTGTGGGGACGTCCTG GTCATGAGAAAGAACTCCTCCCCATCCTCTATCACCACTTACGAGACCTGCCAGACCTACGAGCGGCCCA TTGCCTTCACCGCCCGGTCCAGGAAACTCTGGATCAACTTCAAGACCAGTGAGGCCAACAGCGCTCGAGG CTTCCAGATTCCCTATGTGACCTACGATGAGGACTATGAGCAGCTGGTGGAAGACATAGTGCGTGATGGC CGGCTGTATGCCTCAGAAAACCACCAGGAGATCCTAAAGGCAAGTGAGCGTTCGCTGTGGTGCGGATGGA AATGGGTATGCACCGATGTGCAAGCAAACTGCTAAGTACAGCCTGCCTTTCTACTCCTGGCTCTGTGGGG CATGCGCTTTCTTCACTGCCGCTTTCCAGATGAGAGAGGTAAAGGGCTTTCCCATGATAGGCCTGGGCTC TGGACCCAGCTCACAAAACCAGTGTCAGCATACTGCGTCACCCCTGGGAGGACAGGAGACATCCTCTGCC TTGTCCATCACAGAGGCAGAGAGGGTAAACTGCACAACGATATACGTTGTTTACTTTTTTGAGACAGAGT CTTAAGAGTCTAGGTTGGCTTTGAACTCCGGGTTCCCCTGCTTCCCGCTCCTAAGTGTTTGGTGGGATCA CAGGCCCAGAGGAACGAACACCACCCTGGGTCTGTGGATCCCGATTTGAGTCCCGCCTGGCGTAGTGCTG CTCCCCTTTGATCCCAGCACTCAGGAGGCATAGGCGGGTGGATCTCCGAGTTTAAGGCCAGTCTGGTCTA TATGTGCAGTGCTAGGGTAGCCAAGGAGACATACTGAGACCCTTCCAAATATTTTTTTTTAACTTCACTC TTTTAGTTATGGCTATTTGTGTGGATATGTGCATGGGATTGCAAGGCGGCCAGAGGTGTCAGATCCTCCT GGGGATGGGGTAGCAGGCAGTTGTGAGCCATCTAATATGGGTGCTGGAACCTAAACGCACATCCTTTGCA AGAACTATGTGTGCTCTTAACCTCTGAGCCATCTCTCCAGCCCCACGCCACTGTTTGAAATCAAATGTAA CTGGGTGTGCTGGTGCACATATGGCCCGGCTATTCAGGAGCTGAAGTGGAAAGATCATTCAAGCCCAAGA GTTAAGAAAACAGCCTGGGTGACATGCTGGACTCCATCAGACAGCGAATCAAATGCACCGTGCAACTGTA TGCACAAAGTAGTGCAGCCATGCTGGAGCTGGGGTGGCGCACCTTTGACTGCAGTACGTGGGAGGCAGAG GCAGAGGCAGGAGGATCTCTGGGAGTTCTAGGTCAGCTTCAGGCCAGCCCTAGCCACACAGTGAGACTCT GTCCTAAAGGAAGGACTGTATAGAACAATCGTCTTGGTTAGAGTGGAGTTACGAGGCTGAAAGCCCCAAC TATCTTAGAACTCTGTGTGCAACCTAGAAGCCAGGAGATTCATTGGTAGTTGGGTTGGGTCTCTGTGGGC ACGGGGCTTGTGCATGTGTGTGGGTCTTGGGAATTAAACTGAGGTTGTTAGGCTTGGTGGTAGGGGCCTT TCCTCATGAATCACCTCAGTAGCCCCTAGAGAGGAGTTTTAAGGAGGCGGTGGAGAGGTGAGCTGGAGAG ACCTACGAGGAAAGGTTTGAAAGGAGCTGTGGGATGACCAAGGAACAGTGCAGACCAGTGAGTGCAGCAC TAGTGTGTTGTATTGAAGGACGCCAAGACTACTGTCATTCCACAGGGGAGGAAGAGGAGAGGGAAGCAGG ACACAAGTGACGTACAGCTAGCATGTCACACAAGGGACCTGACTCTTCCTGTGAGTGAGGACAGAAACGG GCTGATATGTAATCAGTGGCAGAGAAAGGTTTGTCAGGCACACAGCCGTGGTGTGGCTCCTGGAGCTAAT CACTGTCATCATTATAAAAGAATAAACTTTCATCAGACATTAAAAAAAAAAAAAAAAAAA
	nt 1 - nt 4120 of BC079849.1
Notes:	The Scube3 probe used in this study by Haworth et al., 2007 [PMID:17258941] is described as follows: "A mouse Scube3 riboprobe was generated from an I.M.A.G.E clone 5705946 (BC079849), purchased from Geneservice (Cambridge, UK). This clone incorporates 4120 basepairs, of which 1-2485 represent coding sequence. We predict that the full-length murine Scube3 gene has 22 exons and that exons 1, 2 and 16 are absent from this clone. Plasmid DNA was linearised with EcoR1 and antisense digoxigenin or 35S-UTP radio-labelled riboprobes generated using T7 RNA polymerase." Editors Note: EcoRI cuts outwith the insert sequence.
Chemistry:	RNA
Strand:	antisense
Label:	digoxigenin

Specimen

Organism:	mouse
Strain:	CD-1
Age:	10.5 dpc
Theiler Stage:	TS17
Mutations:	none (wild-type)
Preparation:	wholemount

Procedures

Fixation:

4% paraformaldehyde

General Information

Authors:	Haworth K; Smith F; Zoupa M; Seppala M; Sharpe PT; Cobourne MT, 2007 [PMID:17258941] , Indexed by GXD, Spatially Mapped by EMAGE.
Submitted by:	EMAGE EDITOR, Institute of Genetics and Molecular Medicine, Western General Hospital, Crewe Road, Edinburgh, UK EH4 2XU
Experiment type:	non-screen
References:	[ doi:10.1016/j.modgep.2006.12.004] [ PMID:17258941] Haworth K, Smith F, Zoupa M, Seppala M, Sharpe PT, Cobourne MT 2007 Expression of the Scube3 epidermal growth factor-related gene during early embryonic development in the mouse. Gene Expr Patterns (7):630-4
Links:	MGI:3709592 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