EMAGE mouse gene expression spatial database

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EMAGE:7608

Rftn1 raftlin lipid raft linker 1 ( MGI:1923688)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_004681. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_004681_01	euxassay_004681_02	euxassay_004681_03	euxassay_004681_04

euxassay_004681_05	euxassay_004681_06	euxassay_004681_07	euxassay_004681_08	euxassay_004681_09

euxassay_004681_10	euxassay_004681_11	euxassay_004681_12	euxassay_004681_13	euxassay_004681_14

euxassay_004681_15	euxassay_004681_16	euxassay_004681_17	euxassay_004681_18	euxassay_004681_19

euxassay_004681_20	euxassay_004681_21	euxassay_004681_22	euxassay_004681_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:

7608_wholemount_strong.wlz

7608_wholemount_moderate.wlz

7608_wholemount_weak.wlz

7608_wholemount_possible.wlz

7608_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:7608_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

hypothalamus mantle layer

strong

regional

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

diencephalon lateral wall mantle layer

strong

regional

strong expression: see section 07 08 09 10 11 moderate expression: see section 12 13 14

telencephalon mantle layer

strong

regional

strong expression: see section 10 11 12 13 14 15

telencephalon marginal layer

strong

regional

strong expression: see section 02 03 04 05 06 07 17 18 19 20 21 22 23

olfactory cortex marginal layer

strong

regional

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

rest of cerebellum mantle layer

strong

regional

strong expression: see section 05 06 07 18 19

midbrain mantle layer

moderate

regional

moderate expression: see section 06 07 08 18

dorsal grey horn

moderate

single cell

moderate expression: see section 07 08 09 10 11 12 weak expression: see section 13 14 15 16

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T8684
Entity Detected:	Rftn1, raftlin lipid raft linker 1 ( MGI:1923688)
Sequence:	sense strand is shown >T8684 CGCGGGGTGGAGTGGGGGCGGCGGGGCTGGAATCAGAGCGCGCAGGGCGCAGAGCGCAGCGAGCGGGAGC GCGGCGGCCACTGGCTCTGGAGAGGTACTTGTGCGGCCAGCGCCGGAGGGACAGACGACAAGCGAGCGGC CGCGCCCCGCGCTCTGCCCCCACCCCCGGGGTCGCGTCGTCCGCGCGCCGCCCTGCTCTGCATGGCACAA ACTTTCATCCCGGGACACAGCACGCTGTCTCCGCCCGCGCCACGGTCACCGCTGCTGGTCCCCTAAGACA GCTGTCAAGATGGGTTGCAGTTTGAACAAGCTGGAGAAACGTGAAGAAAAGCGGCCTGGGAACATTTATT CAACTCTGAAGAGACCTCAGGTGGAGACCAAAGTAGATGTGACCTATGAGTACTGCTTTCTAGAGTTCAC CACACTGACTGCCGCGGAGCTGCCGAGATCCTCCGCCACGAGGTTAGCCTCTCTGCGGGACCTGCCTGAC CAGCTTCTGGAGCTGTACCAACAAGGCTTCTCACTGGCCGCCCTGCACCCATTTGTGCAGCCAACCCGCA GGCAAGAGAAGATCCTCCTGGAACACATCTTTCGGGCCATCCTGGTCAAGAAAACCAACAGGTCTCAGAA GGCTGAGCTTCACGACGAAGGCTACACCCTGGAATTGGATTACTGCTCCTCCTTAGAACACCTGGCCGAC CAGAAGCTCATCCCAGAGTTCATTAAGAAGGTGCAGGAGGCCGCCAGTCAGGGCTTGAAGTTTGTTAGCG TGGTGCCCCAGTACCAGCCCTCGGTGAGCTCAGCAGGCAGCCGGCGTCTCAAGCCTGTTGCCAACAGTGT TGAAGATGCCAGGGATGTGAAATGCACCTTAGGGGACCGTTCATCCTTGGAAAATGATACTCCGAAGGCT GCAGAGACGGATGCTGCCACTGCAGGAGTGAACCGAAGACCGGAGACCAAACCAGGATCCACAGGGGACG TGCCCAGTGCCCAGCAGCCTGGCATTCCCTCTCCCTCGGCAGAGAATGAGGCTGGCGAGTTTCCACTGCG GGGTTTGCAGCCAGCACTGGATAGATCAGAGGGCGACCCCTCAAATGGGCCTGAAGAGCTGCCCTCCAGG AAGATGGAGATCTTCGCCTTTTTCAACAGACCGAAGAGCCAGCAGAAATGTCGGCAGTACTACCCTGTCA CCATCCCCCTCCAGGTCTCCAAGAACGGCCAGACAGTGAGCAGTCTAGACGCCAGCTGGCTGGAACACAT GAGTGACCATTTCCGGAAAGGCGGTGTGCTGGTGAACGCCGTCTTCCAGCTTGGCATGGCCAATGATTCC TTCTATGGCCTGACAGATGGAGTATTCATCTTTGAAGCTGTTTCCACAGAAGATAACAGAACCACACAGG GCTATGACGCTATTGTTGTGGAACAATGGACAGTCCTAGAAGGTACAGAGGTACAGACCGACTACATGCC CCTGCTGAACTCGCTGGCGGCCTACGGATGGCAGCTCACCTGTGTGCTGCCAACGCCTATACTCAAGACT ACCAGGGAAGGGAACGTGTCCACCAAGCAGATTGTGTTTCTTCAGAGACCATGTCTACCTCAGAAAACCA AGAAGAGGGAATCTAAGTTCCAGTGGCGATTCTCCCGGAACGAGATCCACGGCAGGCAGACAAGGAAATC CAAAGGGAAACTCAGTGCCAGCAACAAGCAGCAAGCAGAAGAGAATGAGAAGAATCTGGAAGACCAGTTC TCCAAGGCTGGAGATGTGGGAAACTGTGTGCTGGGGGCACCGCAGTGGGGCAGAGCCTCTGAGGTCAGGG AGCAAAGGCAGGGCTCAGCAGCTGTGCAGAATGGTCCCGCTGGCCACAACAGGGACTCGGTGGCCCTTAG GCACTCGAATCCCAGAGCTGAGGCTGAGCTTGCTGCAGGCCCCACTCCAACAGAAGCAAATTGAGTCCGT GGTTTATGCTAGGCCTGCATTGTGATTGCAAACCTTGGGAAGCTTGCTAGCAGCTGGTTTGTTCTGTGTT ACCCTTTGGCTTGACCTCCCATTGTTAGCTCATTGGCCCCGTGAGCGCGGGTCTCTGATGGTGTTGTTTT CTGCACATCCACTGGAAAGCTGTCTTAATGATCCACTTCTTTTAGAGTGCAAAGTTGGCCTGTTCCTCCC AGACCTCAGGGCTGGAGGCCCGACTCTGGTCCGCCTCTTCCACAAGGAAGGGCATGGACCATAGTGCCTG TACTGCCCCACAGGACTCCAGGGCACATCTGGGTCAACTTCTGGGACATCCTTTGCTACAAACCAAGGTT TTTCTGCTCACTCCTACATGCTGCTGCTCTGGGCAAGAACATAGTGACATTAACCCTGCAGCCTGCCGGC TGGCCTTCCCCACCTGAGCTCTGGAGACCCTGCTGTTGTGGAAGGCAAGGATGTTGGAGAATAGGAGGTA CCCAAGCCTCCTGCCTGTCTTAAGGTAGTTCTATAGATACTGGTGATCTGGAAACAAACAGGTAATTCCC TAAGCCCCGGCTCTTACAGAATGTTCAAGAAAGTATCCTGTGTTAATATTAATGCCAAAAAAATACTGTT TTTAAATTTTGTCTTCAACACATGTATGAATATGTTGTCATTTTGAGCAGTTGGTAACTGGGTGCCCTTG TGTGCTGTTTTTGTTGATGTGTCATTGAGTTGTATGCTGTGCCTGTCACATGTTCATACTGTCCATAACG TGTTGTTAAGGCTTTAAGTAGAAGCATCTGGCAAACCATGGAGCGAGAACACCAGTTGTCTCGATGGAAA CAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:6401192 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:6401192 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:7611 same embryo
	EMAGE:7610 same embryo
	EMAGE:7612 same embryo
	EMAGE:7609 same embryo
	EMAGE:7607 same embryo
	EurExpress:euxassay_004681 same experiment
	MGI:4827704 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