EMAGE mouse gene expression spatial database

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EMAGE:7530

Matn3 matrilin 3 ( MGI:1328350)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_004635. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_004635_01	euxassay_004635_02	euxassay_004635_03	euxassay_004635_04

euxassay_004635_05	euxassay_004635_06	euxassay_004635_07	euxassay_004635_08	euxassay_004635_09

euxassay_004635_10	euxassay_004635_11	euxassay_004635_12	euxassay_004635_13	euxassay_004635_14

euxassay_004635_15	euxassay_004635_16	euxassay_004635_17	euxassay_004635_18	euxassay_004635_19

euxassay_004635_20	euxassay_004635_21	euxassay_004635_22	euxassay_004635_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:

7530_wholemount_strong.wlz

7530_wholemount_moderate.wlz

7530_wholemount_weak.wlz

7530_wholemount_possible.wlz

7530_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7530_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

rib

strong

regional

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

cervical intervertebral disc

strong

regional

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

lumbar intervertebral disc

strong

regional

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

thoracic intervertebral disc

strong

regional

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

upper arm mesenchyme

strong

regional

strong expression: see section 01 22 23

hand mesenchyme

strong

regional

strong expression: see section 01 02 03 04 21 22 23

hindlimb digit 1 metatarsal

strong

regional

strong expression: see section 03

hindlimb digit 1 phalanx

strong

regional

strong expression: see section 03

hindlimb digit 2 metatarsal

strong

regional

strong expression: see section 02 03 20 21

hindlimb digit 2 phalanx

strong

regional

strong expression: see section 03

hindlimb digit 3 metatarsal

strong

regional

strong expression: see section 02 03 20 21

hindlimb digit 3 phalanx

strong

regional

strong expression: see section 03

hindlimb digit 4 metatarsal

strong

regional

strong expression: see section 02 03 21

hindlimb digit 4 phalanx

strong

regional

strong expression: see section 03

hindlimb digit 5 metatarsal

strong

regional

strong expression: see section 03

hindlimb digit 5 phalanx

strong

regional

strong expression: see section 03

foot mesenchyme

strong

regional

strong expression: see section 02 03 20 21

lower leg mesenchyme

strong

regional

strong expression: see section 01 22 23

upper leg mesenchyme

strong

regional

strong expression: see section 01 02 22 23 moderate expression: see section 05 weak expression: see section 06 07 14 15 16 17 18

otic capsule

strong

regional

strong expression: see section 01 02 03 04 05 06 07 08 09 15 16 17 18 19 20 21 22 23

nasal septum

strong

regional

strong expression: see section 11 12 13 14 15

viscerocranium

strong

regional

Expression in the turbinate bone.

meckel's cartilage

strong

regional

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

larynx

moderate

regional

moderate expression: see section 11 12 13 14

sacral vertebral cartilage condensation

strong

regional

strong expression: see section 10 11 moderate expression: see section 08 09 12 13

cranium

strong

regional

strong expression: see section 01 02 03 04 05 06 07 08 18 19 20 21 22 23

clavicle

strong

regional

strong expression: see section 08 09 16 17

axial skeleton tail region

strong

regional

strong expression: see section 10 11 12

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T7624
Entity Detected:	Matn3, matrilin 3 ( MGI:1328350)
Sequence:	sense strand is shown >T7624 CCCAGTTACCTCGCGGCTCACAGACCCCGGCAGGTCGTCAAGCCCATCATGTTGCTCTCAGCCCCCTTAC GCCACCTCCCGGGGCTTCTGCTGCTGCTCTGGCCGCTGTTGCTCCTGCCTTCCCTGGCTGCTCCTGGACG TTTGGCCCGCGCGAGCGTCCGCCGGCTGGGGACACGAGTCCCCGGAGGCAGCCCTGGGCATCTCTCTGCT CTGGCTACTTCCACCCGCGCGCCATATTCCGGGGGCCGCGGCGCAGGTGTTTGCAAGAGCAGGCCTTTGG ACTTGGTGTTCATCATTGATAGTTCTCGTAGCGTCCGGCCTCTGGAATTCACCAAGGTGAAGACCTTTGT CTCCCGCATCATCGACACTCTGGGCATCGGGGCCACAGACACGAGGGTGGCTGTGGTGAACTATGCCAGC ACTGTGAAGATAGAGTTCCAGCTCAACACCTATTCCGACAAGCAGGCCCTGAAACAGGCTGTGGCACGGA TCACACCCTTGTCAACAGGCACCATGTCAGGGCTAGCTATCCAGACAGCGATGGAGGAAGCCTTCACTGT GGAGGCCGGGGCTCGGGGGCCCATGTCTAACATCCCCAAGGTAGCTATTATCGTGACAGATGGGAGGCCG CAGGACCAGGTGAATGAGGTGGCTGCTCGAGCCCGTGCATCTGGCATTGAGCTGTATGCTGTGGGTGTGG ACCGGGCAGATATGGAGTCCCTCAAGATGATGGCTAGCAAGCCCCTGGAAGAGCACGTCTTCTACGTGGA GACCTACGGGGTCATTGAGAAGCTTTCTGCTAGATTCCAGGAAACCTTTTGTGCTCTGGATCAGTGCATG CTTGGCACACACCAGTGTCAGCACGTGTGTGTCAGCGATGGTGACGGCAAGCATCACTGCGAGTGCAGCC AAGGCTACACCTTGAACGCTGATGGGAAAACGTGTTCAGCCATTGATAAGTGTGCCCTTAGCACTCATGG ATGTGAACAGATCTGTGTCAACGACAGAAATGGCTCTTACCACTGCGAGTGCTATGGAGGTTACGCCTTG AATGCAGACAGGAGAACGTGTGCAGCTCTGGACAAATGCGCCTCTGGTACACATGGTTGCCAGCACATCT GTGTGAATGATGGAGCCGGGTCCCATCACTGTGAATGTTTTGAAGGCTACACTCTGAATGCAGATAAGAA AACATGTTCAGTCCGGAACAAGTGTGCTCTAGGCACTCATGGCTGCCAGCACATCTGTGTGAGTGATGGA GCAGTGGCCTACCACTGTGACTGCTTCCCTGGCTACACCTTGAATGATGACAAGAAGACATGTTCAGACA TTGAAGAAGCCCGAAGCCTCATTTCCATAGAAGACGCCTGCGGCTGTGGGGCCACGCTGGCATTCCAGGA GAAGGTCAGCTCCCATCTCCAGAAGCTGAACACCAAACTTGACAACATTTTGAAGAAGTTGAAAGTAACA GAATATGGACAAGTACATCGTTAAACTGTGTAAAACTCTCGCCTGGAAATGTGGAGGGCTTGATATATGC GATTCTCATTCTCTTGTCACGCTATCTGATGTGCCTGCTAATAATCTGCCATTATAAATGCTTAACATTA TTTGGTAAACAGTGTGAGGGGTTTCTGGAGAACCATATTGTTTTCCAAGGAGATAAATGTGTAGACCCTT ATTAAAAGCAAGTTTAATGTCTCATAGCTATGACTGTGAAATCATTAATAAGATAGAGAGTGAAAAGTTT AAGGTTTTGTTATCTACTGTTTGAGCCATTTAAGTTTAAATTGTTTATATTAGTAAGATGATCTTACTCA TAAAACTTTAGGTCTATTTTCTCTTGGTCATATTTATAATACGAACCAGCCTTACTACCAAGAGTGCAAA TTTTATGAAATATTTACACATACAAAGATAAACTAATTAAACTGAGATTTAGAATTGCTTACTATTTTTG TTTTTTTTTTTTGCTGGAATATTATTAAAGCTACAAACAAGGGATTATAATACATGTACCTAAAAATAAT TTACACAGACTAAGTGGATGTTATATGACACTTTTAATTCATTAATGTCATGGAAATGAACAACTAAAGA GTACTGGCTATGAACCTATGGTGCTAAGATTTTTGCTAAGAGAAAAAATTTTGAATTCTATCATTTTGTT TTAGCATGCAATTGGCAAAATTACATATTTATAGAATTAATATAATAAGTAACAAGTTATAATATTATCT TAAAAACTGTCAATAAGCCTGATTTTTCACTCAAAATATACTGAATGCATACACTTTTTAAGCGCAGCTC ATAACTTTTAGAACGAAACAATTCTGTAAATTTTGTGCTACTTGATCTGTTTTGGTTTGTATTGTTTCTA ATATATTAAAAGTTCCCGTCTTTCTACATTAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:30446350 using vector (pCMV-SPORT6) 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 Sp6 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:30446350 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:7531 same embryo
	EMAGE:7534 same embryo
	EMAGE:7529 same embryo
	EMAGE:7533 same embryo
	EMAGE:7532 same embryo
	EurExpress:euxassay_004635 same experiment
	MGI:4826113 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