EMAGE mouse gene expression spatial database

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EMAGE:7544

Col3a1 collagen, type III, alpha 1 ( MGI:88453)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_004670. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_004670_01	euxassay_004670_02	euxassay_004670_03	euxassay_004670_04

euxassay_004670_05	euxassay_004670_06	euxassay_004670_07	euxassay_004670_08	euxassay_004670_09

euxassay_004670_10	euxassay_004670_11	euxassay_004670_12	euxassay_004670_13	euxassay_004670_14

euxassay_004670_15	euxassay_004670_16	euxassay_004670_17	euxassay_004670_18	euxassay_004670_19

euxassay_004670_20	euxassay_004670_21	euxassay_004670_22

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:

7544_wholemount_strong.wlz

7544_wholemount_moderate.wlz

7544_wholemount_weak.wlz

7544_wholemount_possible.wlz

7544_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7544_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

gland

strong

homogeneous

strong expression: see section 01 02 03 04 05 06 07 08 09

alimentary system

strong

homogeneous

strong 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

integumental system

strong

homogeneous

strong 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

diencephalon meninges

strong

homogeneous

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

telencephalon meninges

strong

homogeneous

strong expression: see section 01 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19 20

hindbrain meninges

strong

homogeneous

strong expression: see section 02 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17 18 19

midbrain meninges

strong

homogeneous

strong expression: see section 03 04 05 06 07 08 09 10 11 12 13 14 15 16 17

spinal cord meninges

strong

homogeneous

strong expression: see section 08 09 10 11 12 13 14 15

cardiovascular system

strong

homogeneous

strong 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

urinary system

strong

homogeneous

strong 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

reproductive system

strong

homogeneous

strong 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

respiratory system

strong

homogeneous

strong 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

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T8645
Entity Detected:	Col3a1, collagen, type III, alpha 1 ( MGI:88453)
Sequence:	sense strand is shown >T8645 CGGGCCCGGTGCTGAAGGGCAGGGACAACTGATGGTGCTACTCTGAGCTGCTTCTTCCTCTCTCCTCTTT TGCACAAAGAGTCTCATGTCTGATATTTAGACATGATGAGCTTTGTGCAAAGTGGAACCTGGTTTCTTCT CACCCTTCTTCATCCCACTCTTATTTTGGCACAGCAGTCCAACGTAGATGAATTGGGATGCAGCCACCTT GGTCAGTCCTATGAGTCTAGAGATGTCTGGAAGCCAGAACCATGTCAAATATGTGTCTGTGACTCAGGAT CTGTCCTTTGCGATGACATAATCTGTGATGAGGAGCCACTAGACTGCCCCAACCCAGAGATCCCATTTGG AGAATGTTGTGCAATATGCCCACAGCCTTCTACACCTGCTCCTGTGCTTCCTGATGGCCATGGACCTCAA GGCCCCAAGGGAGATCCGGGTCCTCCTGGCATTCCTGGGAGAAATGGTGACCCTGGCCTTCCAGGACAAC CAGGTCTCCCTGGGCCTCCTGGCTCCCCTGGAATCTGTGAATCATGTCCAACTGGTGGCCAAAATTATTC TCCCCAATTCGACTCATATGATGTCAAGTCTGGAGTGGGAGGAATGGGTGGCTATCCGGGACCAGCTGGT CCACCAGGCCCTCCAGGACCCCCTGGTTCTTCTGGACATCCTGGATCTCCTGGTTCTCCTGGATACCAAG GTCCCCCTGGTGAACCTGGTCAAGCTGGTCCGGCAGGCCCTCCAGGACCTCCTGGTGCTCTTGGTCCAGC TGGTCCTGCTGGAAAGGATGGAGAGTCAGGAAGACCTGGACGACCTGGAGAGCGTGGACTGCCTGGACCT CCAGGTATCAAAGGCCCAGCTGGCATGCCTGGATTCCCTGGTATGAAAGGACACAGAGGCTTTGATGGAC GCAATGGAGAAAAGGGAGAAACAGGTGCTCCTGGACTGAAGGGTGAAAATGGTCTTCCAGGAGACAACGG AGCTCCTGGCCCCATGGGTCCTAGAGGGGCTCCTGGTGAGCGAGGACGACCAGGCCTTCCTGGAGCTGCA GGTGCTCGAGGCAATGATGGTGCTCGGGGCAGTGATGGGCAACCTGGTCCCCCTGGCCCTCCTGGAACTG CAGGATTCCCTGGATCCCCTGGTGCTAAGGGTGAAGTTGGACCTGCAGGGTCCCCTGGCTCAAATGGCTC ACCAGGACAAAGAGGGGAGCCTGGACCGCAGGGACATGCTGGTGCTCAAGGGCCTCCTGGCCCTCCCGGG AATAACGGCAGTCCTGGTGGAAAGGGTGAAATGGGTCCAGCTGGCATTCCTGGAGCCCCTGGACTAATAG GAGCAAGGGGCCCCCCTGGACCAGCAGGAACTAATGGTATACCCGGAACACGAGGTCCTTCAGGTGAACC CGGCAAGAACGGTGCGAAGGGAGAGCCAGGAGCACGCGGTGAACGGGGCGAAGCTGGTTCCCCAGGAATT CCAGGACCTAAGGGCGAAGATGGCAAAGATGGATCACCTGGAGAACCTGGTGCAAATGGGCTTCCAGGAG CCGCAGGAGAAAGGGGTCCTAGTGGCTTCCGAGGACCTGCAGGGCCAAATGGCATCCCAGGAGAAAAGGG TCCTCCCGGAGAGCGTGGTGGCCCAGGTCCTGCAGGACCCAGAGGAGTAGCTGGAGAACCTGGCCGAGAT GGAACCCCTGGAGGTCCAGGGATACGGGGTATGCCCGGAAGTCCAGGTGGACCAGGCAATGATGGAAAAC CAGGACCTCCTGGAAGTCAAGGAGAAAGTGGTCGCCCTGGTCCCCCTGGCCCATCTGGTCCCAGAGGTCA GCCTGGTGTCATGGGTTTCCCTGGTCCTAAAGGAAATGATGGTGCCCCTGGCAAGAATGGAGAACGGGGT GGCCCTGGAGGACCTGGCCTTCCAGGTCCTGCTGGAAAGAATGGGGAGACTGGACCTCAGGGTCCCCCAG GACCTACTGGCCCAGCTGGTGACAAGGGAGATTCTGGACCCCCTGGTCCACAAGGATTACAAGGCATACC TGGTACCGGTGGTCCTCCAGGAGAAAATGGGAAACCAGGTGAACCAGGTCCAAAGGGTGAAGTCGGTGCT CCTGGAGCTCCTGGAGGCAAGGGTGATTCTGGTGCACCTGGAGAACGTGGGCCTCCTGGAACAGCAGGAA TCCCTGGTGCTAGAGGTGGAGCTGGACCCCCTGGCCCTGAGGGAGGAAAGGGCCCTGCTGGTCCCCCTGG CCCTCCTGGTGCTTCTGGTTCTCCTGGTCTGCAAGGGATGCCAGGGGAAAGAGGAGGTCCTGGAAGTCCT GGCCCAAAGGGTGAAAAGGGTGAACCAGGTGGTGCAGGTGCTGACGGAGTTCCAGGAAAGGATGGGCCAA GGGGTCCTGCTGGCCCTATTGGTCCCCCTGGCCCAGCTGGTCAGCCTGGAGATAAGGGTGAAGGTGGTTC CCCTGGACTTCCAGGTATAGCTGGACCTCGAGGTGGCCCTGGTGAGAGAGGTGAACATGGCCCTCCAGGA CCTGCTGGCTTCCCGGGTGCTCCTGGACAGAATGGTGAACCAGGTGCTAAAGGAGAAAGAGGTGCCCCTG GAGAGAAAGGTGAAGGAGGCCCTCCAGGACCTGCAGGACCCACTGGCAGTTCTGGACCTGCTGGTCCGCC TGGTCCTCAGGGTGTAAAGGGTGAACGTGGTAGTCCTGGTGGTCCTGGTACTGCTGGCTTTCCCGGTGGG CGTGGTCTTCCTGGTCCTCCTGGCAATAATGGTAATCCAGGGCCCCCAGGACCCAGTGGTGCTCCTGGCA AGGACGGCCCTCCAGGTCCTGCAGGCAACAGTGGTTCTCCTGGCAACCCTGGAATAGCTGGACCAAAAGG TGATGCTGGACAGCCTGGAGAGAAGGGGCCACCTGGTGCTCAGGGTCCTCCGGGTTCCCCAGGCCCACTT GGAATTGCAGGGCTAACTGGAGCACGAGGTCTTGCTGGACCACCAGGCATGCCAGGTCCACGGGGTAGCC CTGGACCTCAGGGTATCAAGGGTGAAAGTGGAAAACCAGGAGCCAGTGGCCATAATGGGGAACGTGGTCC TCCTGGACCCCAAGGTCTTCCTGGTCAGCCTGGTACAGCTGGTGAACCTGGAAGGGATGGAAACCCTGGA TCAGATGGTCAGCCAGGTCGAGATGGATCTCCTGGTGGCAAGGGTGATCGTGGTGAAAATGGTTCTCCTG GTGCCCCAGGCGCTCCTGGTCATCCAGGCCCACCTGGCCCTGTTGGTCCATCTGGAAAGAGTGGTGACAG AGGAGAAACTGGCCCTGCTGGTCCTTCTGGTGCTCCAGGCCCTGCTGGAGCTCGAGGTGCTCCGGGTCCC CAAGGTCCACGAGGTGACAAAGGTGAAACTGGTGAACGTGGCTCTAATGGCATCAAAGGACATCGAGGAT TCCCTGGCAATCCAGGTCCTCCAGGTTCTCCTGGTGCTGCTGGTCACCAGGGTGCAATTGGTAGTCCAGG ACCTGCAGGTCCCAGAGGACCAGTTGGACCACATGGACCTCCTGGAAAAGATGGAACAAGTGGGCATCCA GGTCCTATTGGACCACCAGGTCCTAGAGGAAACAGAGGTGAAAGAGGATCTGAGGGCTCGCCAGGCCACC CTGGACAGCCAGGACCCCCTGGACCCCCTGGTGCCCCTGGTCCCTGCTGTGGTGGTGGTGCTGCTGCCAT TGTTGGAGTTGGAGGTGAAAAGTCTGGTGGCTTTTCACCCTATTATGGAGACGATCCAATGGATTTCAAG ATCAACACTGAAGAGATTATGTCTTCACTCAAGTCTGTTAATGGACAAATAGAGAGTCTTATAAGCCCTG ATGGTTCTCGAAAAAACCCTGCTCGGAACTGCAGAGACCTAAAATTCTGCCACCCCGAACTCAAGAGTGG AGAATACTGGGTTGATCCTAACCAAGGCTGCAAGATGGATGCTATAAAAGTATTCTGTAACATGGAAACT GGGGAAACATGCATAAATGCCAGCCCCATGACTGTCCCACGTAAGCACTGGTGGACAGATTCTGGTGCAG AGAAGAAACATGTTTGGTTTGGAGAATCTATGAATGGTGGTTTTCAGTTCAGCTATGGCCCTCCTGATCT TCCTGAAGATGTCGTTGATGTGCAGCTGGCATTCCTCAGACTTCTTTCCAGCCGGGCCTCCCAGAACATT ACATACCACTGCAAAAACAGTATTGCCTATATGGATCAGGCCAGTGGCAATGTAAAGAAGTCTCTGAAGC TGATGGGATCAAATGAAGGCGAATTCAAGGCTGAAGGAAACAGCAAATTCACTTACACAGTTCTAGAGGA TGGCTGTACTAAACACACTGGGGAATGGAGCAAGACAGTCTTTGAATATCAAACACGCAAGGCAATGAGA CTACCCATCATAGATATCGCACCCTATGACATTGGGGGTCCTGATCAAGAATTTGGTGTGGACATTGGCC CTGTTTGCTTTTTATAAGCCAAACTCTCTGAAACCCCAGCAAAACAAAAACCACATCCATGTGTTCATCT TGTTTTAATCTTATCAACCAGTGCAAGTGACCAACTAAATTCCAGTTATTTATTTCCAAACTTTTGGAAA AAGCATAATTTGACAAAAAAAGAATACAATTTTTTGCTGTTTCAACCACCCAATACAGGTCAAATGCTTT TGTTTTATTTTTTTACCAATTCCAACTTCAAAATGTCTCAATGGTGCTATAATAAATAAACGTCAACACT TTTATGATAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:5720872 using vector (pYX-Asc) specific primers. Forward Primer - name:RZPD T3, sequence:ATTAACCCTCACTAAAGGGA; Reverse Primer - name:RZPD T7, sequence:TAATACGACTCACTATAGGG. Anti-sense probe was then transcribed from the PCR amplified template using T7 polymerase. EMAGE Editor's Note: the probe sequence indicated here was given by the EURExpress Consortium and has been checked using a computational method whereby a BLAST comparison was made against the full insert sequence of IMAGE:5720872 which was retrieved directly from NCBI.
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:7542 same embryo
	EMAGE:7541 same embryo
	EMAGE:7545 same embryo
	EMAGE:7546 same embryo
	EMAGE:7543 same embryo
	EurExpress:euxassay_004670 same experiment
	MGI:4823990 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