EMAGE mouse gene expression spatial database

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EMAGE:20055

Nfkb1 nuclear factor of kappa light polypeptide gene enhancer in B-cells 1, p105 ( MGI:97312)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_012426. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_012426_01	euxassay_012426_02	euxassay_012426_03	euxassay_012426_04

euxassay_012426_05	euxassay_012426_06	euxassay_012426_07	euxassay_012426_08	euxassay_012426_09

euxassay_012426_10	euxassay_012426_11	euxassay_012426_12	euxassay_012426_13	euxassay_012426_14

euxassay_012426_15	euxassay_012426_16	euxassay_012426_17	euxassay_012426_18

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:

20055_wholemount_strong.wlz

20055_wholemount_moderate.wlz

20055_wholemount_weak.wlz

20055_wholemount_possible.wlz

20055_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:20055_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

strong

regional

strong expression: see section 07 08 09 10 11

hypothalamus ventricular layer

weak

homogeneous

weak expression: see section 10 11

diencephalon lateral wall ventricular layer

weak

homogeneous

weak expression: see section 10 11 12

olfactory cortex ventricular layer

weak

homogeneous

weak expression: see section 08 12

telencephalon ventricular layer

weak

homogeneous

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

metencephalon floor plate

moderate

regional

moderate expression: see section 10

naris

moderate

regional

moderate expression: see section 07 08 10 11

stomach

weak

regional

weak expression: see section 02 03 04 05

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T30393
Entity Detected:	Nfkb1, nuclear factor of kappa light polypeptide gene enhancer in B-cells 1, p105 ( MGI:97312)
Sequence:	sense strand is shown >T30393 ATCCCTACGGAACTGGGCAAATGTTTCATTTGAACACTGCTTTGACTCACTCAATATTTAATGCAGAATT ATATTCACCAGAAATACCACTGTCAACAGATGGCCCATACCTTCAAATATTAGAGCAACCAAAACAGAGG GGATTTCGATTCCGCTATGTGTGTGAAGGCCCATCACACGGAGGGCTTCCGGGAGCCTCTAGTGAGAAGA ACAAGAAATCCTACCCACAGGTCAAAATTTGCAACTATGTGGGGCCTGCAAAGGTTATCGTTCAGTTGGT CACAAATGGAAAAAACATCCACCTGCACGCCCACAGCCTGGTGGGCAAGCACTGTGAGGACGGGGTATGC ACCGTAACAGCAGGACCCAAGGACATGGTGGTTGGCTTTGCAAACCTGGGAATACTTCATGTGACTAAGA AAAAGGTATTTGAAACACTGGAAGCACGGATGACAGAGGCGTGTATTAGGGGCTATAATCCTGGACTTCT GGTGCATTCTGACCTTGCCTATCTACAAGCAGAAGGCGGAGGAGACCGGCAACTCACAGACAGAGAGAAG GAGATCATCCGCCAGGCAGCCGTGCAGCAGACCAAGGAGATGGACCTGAGCGTGGTGCGCCTCATGTTCA CAGCCTTCCTCCCTGACAGCACTGGCAGCTTCACTCGGAGACTGGAGCCTGTGGTGTCAGACGCCATCTA TGATAGCAAAGCCCCGAATGCATCCAACCTGAAAATCGTGAGAATGGACAGAACAGCAGGATGTGTGACG GGAGGGGAGGAGATTTACCTTCTCTGTGACAAGGTTCAGAAAGATGACATCCAGATTCGGTTTTATGAAG AGGAAGAAAATGGCGGAGTTTGGGAAGGA
Notes:	The probe template was received by the EURExpress consortium as an aliquot of PCR product from the Allen Brain Atlas (originally amplified from the plasmid IMAGE:6392793), and this was re-amplified using the gene-specific Allen Brain Atlas Primer Pair 58564. Forward Primer - name:058564_F_IRAV103_a09_Nfkb1, sequence:ATCCCTACGGAACTGGGC; Reverse Primer - name:058564_R_SP6_IRAV103_a09_Nfkb1, sequence:ATCCTTCCCAAACTCCGC. The reverse primer contains a 5' extension containing an SP6 RNA polymerase binding site (this extension is not shown in the primer sequence listed here). Anti-sense probe was transcribed from the PCR amplified template using SP6 polymerase.
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:20059 same embryo
	EMAGE:20057 same embryo
	EMAGE:20058 same embryo
	EMAGE:20056 same embryo
	EurExpress:euxassay_012426 same experiment
	MGI:4826690 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