EMAGE mouse gene expression spatial database

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EMAGE:7301

Rab3d RAB3D, member RAS oncogene family ( MGI:97844)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_004414. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_004414_01	euxassay_004414_02	euxassay_004414_03	euxassay_004414_04

euxassay_004414_05	euxassay_004414_06	euxassay_004414_07	euxassay_004414_08	euxassay_004414_09

euxassay_004414_10	euxassay_004414_11	euxassay_004414_12	euxassay_004414_13	euxassay_004414_14

euxassay_004414_15	euxassay_004414_16	euxassay_004414_17	euxassay_004414_18	euxassay_004414_19

euxassay_004414_20	euxassay_004414_21	euxassay_004414_22	euxassay_004414_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:

7301_wholemount_strong.wlz

7301_wholemount_moderate.wlz

7301_wholemount_weak.wlz

7301_wholemount_possible.wlz

7301_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7301_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

physiological umbilical hernia epidermis

moderate

regional

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

epidermis

moderate

regional

moderate expression: see section 09 10 11 12 13 14 15 16 17 18 19 20 21 22 23

cerebral cortex

moderate

regional

moderate 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

medulla oblongata basal plate mantle layer

moderate

regional

moderate expression: see section 08 09 15 16

facial vii ganglion

moderate

regional

moderate expression: see section 07 18

glossopharyngeal ix ganglion

moderate

regional

moderate expression: see section 07 08 17 18

trigeminal v ganglion

moderate

regional

moderate expression: see section 04 05 06 07 08 17 18 19 20 21 22

dorsal root ganglion

moderate

regional

moderate expression: see section 06 07 08 11 12 13 14 15 16 17 18

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T6426
Entity Detected:	Rab3d, RAB3D, member RAS oncogene family ( MGI:97844)
Sequence:	sense strand is shown >T6426 CGGGATCCGGGTGTCAGTGTTGGCAGCGCCGGCAGCTGTGGGGCGAGGGTCGCAGCCCTGTGCGGGGCCG TAGCAACTTCGTGGGCGGATCCTGGTGTGCAAGGCGGGACCCGAGATCCCACTGAGATGGCATCCGCTAG TGAGCCCCCTGCCAGCCCAAGAGACGCTGCTGACCAGAACTTTGACTACATGTTCAAACTGCTCTTGATC GGGAACAGCAGCGTGGGCAAGACATCCTTCCTGTTCCGCTATGCCGATGACTCCTTCACCCCTGCCTTCG TGAGCACAGTGGGCATCGACTTCAAGGTCAAGACGGTCTACCGACATGACAAGAGGATCAAGCTGCAGAT TTGGGACACAGCAGGCCAGGAGCGCTACCGGACAATCACCACGGCCTACTATCGCGGAGCTATGGGTTTC CTGCTCATGTATGACATCGCCAACCAGGAGTCCTTCACCGCGGTGCAGGACTGGGCTACGCAGATCAAAA CCTATTCCTGGGACAATGCCCAGGTAATCCTCGTGGGGAACAAGTGTGACCTGGAAGACGAACGGGTCGT ACCTGCTGAGGATGGCCGGAGGCTCGCCGATGATCTTGGTTTTGAGTTCTTTGAGGCCAGCGCCAAGGAG AATATCAATGTGAAGCAGGTGTTCGAGCGCCTGGTGGACATCATCTGTGACAAGATGAATGAATCCCTGG AACCCAGCTCCAGCCCAGGCAGCAATGGAAAAGGCCCAGCCCTTGGGGATACCCCACCCCCACAGCCGAG CAGCTGCAGCTGTTAGGTTCAGCCCCTTACCTCCCCACACCTGTCCCTTCTTGCCTCTTCAAGGACAGCA GCTAAGGTGTGAGCTATGGGGACTGTCTCTCAGCTCAGGGCACCCTTGCCTCTGGGCCACTTCCCACTCC TCTTGCACAAGTTCATGTCCCTTTCTCTCCATGTCAGAATGCTCAGACACTCCTGGTTAGAGCCCACACA CCCCGGGCTCTGCTCAGCATTGTCTGAGGGGTTGGGGTACCCACACAGGTGCTTGCTGCTTCCCACGGCA TTTTGATGGAGGTAGCTGTGGCGGCATTGCCTTCCCTGAGTGAGAGAGGGGATGTTCATGCCTTCTGCCT TAGAACCATTTCCCAGGTCTACTCTTCATATCGCTGGCTGAAGTTGTCACCTGGCGTGGGTTGCTGTCCA ACTTAGTCCTGGCAGCCTCTCTATCTCAGGTCCACCAGTTTGGCCTTGAAACCTGCCTGTGAACTGACTG CTAGCCAAGGACACAGGCAGGGCTGCAGTCTCCATCCTCTGCCTCCCTGGCGTCTACCGGAAGGGAAAGC CTGTTTTCTGGTTAGGGAAGGGACAGAGTCGGAGCCACCCCTGGCACCGGGAACTCTCCAAAGTGCCTTC CCAGCTTCCCCTGAGTCTATCCACTCAGTGTGGGTTAATCTACTCCCAGAATTAAATTTTGGAGTATTCC AGGGCCTGTCACATGGGGCTGAGAATCGCCCACCCTAGCAGTCCAGCTTTCTGTCAGTTCACCTCAGAGC CAGGGAACTGAGGCCACCTGCCCAGGCTCCCATCTGTCTGCCTGGTGGTGGCTTAGGCAAGAGCTTTACA AACCTTACATCCTGTGTAGAAACGGAAGTGGAGAAAGCAGCCCACAGAGGGTGTGCCCTTGCTGGTCAGT TTCTTATGACAGGATTTGGGCTTCTCCACATGAGGACTCTTGTGTAGACCCAGTGTCAGCATCATGGCCG TTGCCCAGGGACACTGGGGCTGTGGGGAAGGACTGGGGGAAGGCACTAGTGGGCAACCCAGTCCGTCATG GGAGCAGGAGTCCTTCCTGTGAATTAGGGATGGGCTGTGGGTTGTGACTGCTTTCTCTACAAAGCTTGAG ACGTAGCCCCTAGGACCCTGGGTTCTATTTCTATTCACTGACCAGACTCCCCTAAACACTATCTGACATT TCATGGTCCAGGTGACAGATGCTCTGTGTCACACACCCCTGACTCTGTATGGGGGGTGGAGTGTACTCCT TCAGCCCCCACAGCCAGAATCACTTCTGCAGCCTTCCTGAGCTCAGCACCCTCCCTGACTGTATATGACC TACAGTGCCTGGTTCAGATGTATTTCTAGCCCTGCCAGTGGCTGTCTTTGTACAGATTGGACAAGCAGAG TGAAGGTGTCTAAACACTTAGAGGAAAGACTCAATTTTTTAAAATGTTGCTTTATCATTAAATAGTCAAA ACGGTGCAAATTATGTTCTTAAGATTCAGCAACCTGCAGGGCGTTGTGGTGGTGAAAATTTTTGATCCCA GCATTCTGGAGGCGGAGGCAGGTGGATCTCTGAGTTCGAGACCAGCCTGATCTACAGAGCAAGTTCCAGG ACAGCCAGGGCTACACAGAGAAACCCTGTTTTGAAAAACAGAGAGAAGGAGAGAGAGAGCAAGAGAGAAT GATGCAGCTAGTCTGGAAGGAACCTGGAACTAGCTCTCTCGCTAGCATTTGCCTACTGTTTTGCACAGGG TCCTGGCTTGAAGACCCAGCACTGCACAAACTAGGCACGTGCTCCAGGGATGTCATTCTAGTAGAGGCGG GAGGATCGGAAGTTTGGAGTCACCTTTGAGTACTACCTAGGAAGTTTGAGGCTAGCCTGGAGCTATAAGA GGCTGACACGGGGCGGGGGCGGGAGGAAGGCCTGTCAAAGACTCTATGGACCAGTCCATTCCCAAGCAGA GTCGTGGAGATCCTGCCCGTAGTTAGCTAAGACCGGTCCTGACGTTTTGTGTCAACTAAATCGCGTCTGA CTGTATCTTGGACTTAGTCTCGGCTTCCTGTTGCTAGAAGAGGCTCCTTCACTTCTACTCTGAACACCCA CAGAGGAAGCCACCCTGTGGTTTTCTTACAACTGGGGATTTGGCTGGTGGAATGGCTCATCTGAAGACAC TGCCACCAAGCCTGATGACCTGAGTTAGACCTCGGGATCCATGAGGTAGAAGAAGAGAAATGAGCCCTTT AAGCCACCATCTCCCCTCCACGGTGAGCAAGGGTGTGTGCACAGTCAGTGTCAGACAAAAAAAAAAAAAA A
Notes:	The probe template was PCR amplified from IMAGE:3584902 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:3584902 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:7302 same embryo
	EMAGE:7299 same embryo
	EMAGE:7300 same embryo
	EMAGE:7298 same embryo
	EMAGE:7303 same embryo
	EurExpress:euxassay_004414 same experiment
	MGI:4827579 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