EMAGE mouse gene expression spatial database

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EMAGE:11034

Sptlc3 serine palmitoyltransferase, long chain base subunit 3 ( MGI:2444678)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_003401. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_003401_01	euxassay_003401_02	euxassay_003401_03	euxassay_003401_04

euxassay_003401_05	euxassay_003401_06	euxassay_003401_07	euxassay_003401_08	euxassay_003401_09

euxassay_003401_10	euxassay_003401_11	euxassay_003401_12	euxassay_003401_13	euxassay_003401_14

euxassay_003401_15	euxassay_003401_16	euxassay_003401_17	euxassay_003401_18	euxassay_003401_19

euxassay_003401_20	euxassay_003401_21	euxassay_003401_22	euxassay_003401_23	euxassay_003401_24

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:

11034_wholemount_strong.wlz

11034_wholemount_moderate.wlz

11034_wholemount_weak.wlz

11034_wholemount_possible.wlz

11034_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:11034_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

thymus primordium

moderate

spotted

moderate expression: see section 11 12 13 14 15

epidermis

strong

regional

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 23 24

vibrissa

weak

regional

weak expression: see section 03 04 05 06 20 21 22

not examined

regional

not examined expression: see section 01

cochlea

weak

regional

weak expression: see section 03 04 05 06 07 08 16 17 18 19 20 22

pharyngo-tympanic tube

moderate

regional

moderate expression: see section 01 02 03 21 22 23 24

not examined

regional

not examined expression: see section 01 02 03 21 22 23 24

naris

moderate

regional

moderate expression: see section 10 11 16 17

nasal cavity olfactory epithelium

moderate

regional

moderate expression: see section 08 09 16 17 weak expression: see section 18

nasal cavity respiratory epithelium

moderate

regional

moderate expression: see section 10 11 12 13 14 15 16

esophagus

moderate

regional

moderate expression: see section 12

tongue epithelium

moderate

regional

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

stomach

moderate

regional

moderate expression: see section 01 02 03 04 05 06 07 not examined expression: see section 08

lower jaw incisor

moderate

spotted

moderate expression: see section 09 17 weak expression: see section 18

bladder

moderate

regional

moderate expression: see section 13 14

urethra of male

moderate

regional

moderate expression: see section 13 14 15

thyroid cartilage

moderate

regional

moderate expression: see section 12

larynx

moderate

regional

moderate expression: see section 11 12 13 14

trachea

weak

regional

weak expression: see section 13

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T5946
Entity Detected:	Sptlc3, serine palmitoyltransferase, long chain base subunit 3 ( MGI:2444678)
Sequence:	sense strand is shown >T5946 GTTCCAGGAGACTGCAGAAAGCGAACCTGCCTTGGCTCCAGCACATCCGACCAATGGCCAATCTGAACGA CAGTGCTGTTACAAATGGGACTCTACACAATCCTAAGACCCAGCAAGGAAAAAGGCAAAGCACTGGTTGT GTGAAAAATGGAATCTCAAAGGAAGCCCAGCAAAATAGGAAGGCATATGCTGAGGATAAGCCAGTCTTTG AGCCCTACCAGGAAGCACCACTTTATGTCTACGTTTTAACTTACATGGGATATGGAATTGGAATCCTATT CGGCTATCTCAGAGACTTTATGAGAAACTGGGGAATTGAAAAATGCAATGCAGCTGTAGAGCGAGAAGAA CAAAAAGACTTTGTGCCGCTGTATCAGGACTTTGAGAACTTTTATAAGAGGAACCTTTACATGAGAATCA GAGACAGCTGGAGTCACACGGTCTGCAGTGCCCCAGAGCCTTACATGAATGTCATGGAGAAAGTGACTGA TGACTATAACTGGACATTCAGGCATACTGGAAAAGTTATAGAAAATATCATCAACATGGCCTCCTACAAC TACCTTGGGCTTGCAGGGAAATATGATGATTCGATGGTGAGAGTTAAGGATACTTTAGAAAAGTATGGTG TAGGTGTGGCCAGCACCAGAAATGAAATGGGTACCTTGGATATACACAAGGAGTTGGAGGATCTCATGGC TGAGTTCTTGAATGTAGAAGCAGTGATGTCTTTTGGAATGGGATTCGCAACCAACGCAATGAATATCCCT GTATTTGTTGGAAAGGGATGCCTCATTTTAAGTGATGAGTTTAACCACACTTCAGTCATCCTAGGATCTC GACTCTCAGGTGCAGTCATAAGACCCTTCAAACACAATAATGCAGAAAACCTAGAGAAGCTCCTGAGAGA AGCTATCATCCGTGGCCAGCCTGGCACAGGGAGAGCTTGGAAAAAGATTCTCATCGTGGTAGAGGGCGTC TACAGCATGGAAGGTTCCATTGTGAACCTTGCCCAGATAGTGGCTCTAAAGAAGAAATACAAGGCTTACC TGTACATTGATGAAGCTCACAGTATTGGCTGTACAGGCCCCACGGGACGAGGCGTCAGAGAGTTATTTGG ACTGGACCCTGAAGATATTGACGTATACATGGGTACATTCACCAAGAGCTTCTCGGGCTCAGGAGGATAT ATAGGCGGGAAAAAGGAAATTGTGGATTATTTACGGATGCAGTCACATAGCACTACTTATGCTACATCCA TGAGTCCCGTAGTAGCAGCACAACTCATCAGATCATTGAAGATAACTATGGATATGAGGGGAACATTGGA GGTATGGAGAGAATACAGCAACTTAAGGAAAACATAAAATACTTCCGACGGCGACTGAAAGAGATGGGAT TCATCATCTATGGCAATGATTTCTCTCCGGTGATCCCTGTGCTCCTCTATATGCCCGCTAAAGTGTCTGC TTTCAGCAGATTTTTGCTTAAGAAAAAGATCTCAGTGGTGGTTGTTGGATTTCCAGCTACTTCCCTGCCA GAAGGTCGGGCCAGGTTCAGCATGTCCTCTGCACATACTCGGGAGATGTTAGACACAGTTTTGGAAGTCG TTGATGAGCTCGGTGATCTCCTGAACGTGAAATATTTCCCACTCAAGAAATCAGGGCGTGCTATACTCTA CAATAAGGAGGGTTTTGACAATGAAGCAAGCTTTGAAGAGATGCACTCTGAACCGGAAGCCTAAGTTCCT GACTCCAAATGGAACATAAAGACTGCCAGAAAGACCTCCCTCCCTCTTTATCTCGAAAGTAATATAATTG TATTTTACCCCTTCTGAGGACAATTTCATTTTCCAAACAGGCTTAATTGGAAAAGGGAAATAATCATTTA TTTAATGTCTCAAGCCTGCTGCTACAAAGCAAAATAATATAATTCTAGATTTCAGTTTTCCCTCTCCTTT GCTATAAATACACACATGCGTACAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:3483569 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:3483569 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:11030 same embryo
	EMAGE:11032 same embryo
	EMAGE:11033 same embryo
	EMAGE:11029 same embryo
	EMAGE:11031 same embryo
	EurExpress:euxassay_003401 same experiment
	MGI:4828434 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