EMAGE mouse gene expression spatial database

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EMAGE:12314

Fibcd1 fibrinogen C domain containing 1 ( MGI:2138953)
TS23 (14.5 dpc)
in situ hybridisation

Data Images


"Pseudo-wholemount" of euxassay_010963. This image has been made by aligning and collapsing the constitutent sections. Information about the method.	euxassay_010963_01	euxassay_010963_02	euxassay_010963_03	euxassay_010963_04

euxassay_010963_05	euxassay_010963_06	euxassay_010963_07	euxassay_010963_08	euxassay_010963_09

euxassay_010963_10	euxassay_010963_11	euxassay_010963_12	euxassay_010963_13	euxassay_010963_14

euxassay_010963_15	euxassay_010963_16	euxassay_010963_17	euxassay_010963_18	euxassay_010963_19

euxassay_010963_20	euxassay_010963_21	euxassay_010963_22	euxassay_010963_23	euxassay_010963_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:

12314_wholemount_strong.wlz

12314_wholemount_moderate.wlz

12314_wholemount_weak.wlz

12314_wholemount_possible.wlz

12314_wholemount_not_detected.wlz

(what is wlz format?)

Download all expression domains:

EMAGE:12314_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 11 12 13 14 15 16

diencephalon lateral wall mantle layer

strong

regional

strong expression: see section 11 12 15 16 17 18 moderate expression: see section 09 10

diencephalon lateral wall ventricular layer

strong

regional

strong expression: see section 13

thalamus mantle layer

strong

regional

strong expression: see section 07 08 12 14 15 18

telencephalon mantle layer

strong

regional

strong expression: see section 07 08 15 16 17 18 19 20 21

telencephalon marginal layer

strong

regional

strong expression: see section 05 06 07 10 11 12 13 15 16 17 18 19 20 21

medulla oblongata alar plate mantle layer

strong

regional

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

medulla oblongata basal plate mantle layer

strong

regional

strong expression: see section 08 09 10 11 15 moderate expression: see section 16

pons mantle layer

strong

regional

strong expression: see section 06 07 18 19

midbrain mantle layer

strong

regional

strong expression: see section 05 06 07 08 09 10 11 14 15 16 17 18 19

midbrain marginal layer

strong

regional

strong expression: see section 07 08 09 10 11 13 14 15 16 17 18

midbrain ventricular layer

strong

regional

strong expression: see section 12 13

spinal cord mantle layer

strong

regional

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

liver

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

renal cortex

strong

regional

strong expression: see section 09 10 11 12 18 19 20 21 22

Annotation Validation:

spatial mapping by EMAGE editor, text annotation by author

Detection Reagent

Type:	in situ hybridisation probe
Identifier:	T9329
Entity Detected:	Fibcd1, fibrinogen C domain containing 1 ( MGI:2138953)
Sequence:	sense strand is shown >T9329 GCGGGACGCGGGGACGGCGCGGCGCGGGCGGCTCTCGGAGGCTCGCGCCCGCGCTCCCAGCAATCACACG CGCTCACACGCAGCCTAGCTGGCGGCCGCCGCTCCCGGGCCACCCCGGATCCCCGGCACCGAGGGGACCT CCTGCGAGTGCAACGCACCCTGTGCACCCCTCGCCTCCTTTGCACTCGCCCTTGCCCCGCAACCCCGCTG GTCTTGCTGGAAGATGGTCCACGAGCGGTGGAAGACCGTGGGCAGCGCGTCCCAACTTGAGGACCGACCG CGCGACAAACCGCAGCGAGCAAGCTGCAGTTATGTCCTGTGCACGGTGCTCCTGTCCCTTGCGGTGCTGC TGGCGGTGGCTGTCACCGGGGTGGTTCTCTTCCTGAACCACACCCACACACCAGGCACGGCGCCCCCACC CATCGTCAGCACGGGGACTGCCGGAGCCAACAGTGCCCTGGTCACTGTGGAGAGGGCTGACAGCTCCCAC CTCAGCCTTCTCATCGACCCTCGCTGCCCCGACCTCACTGACAGCTTCGCCCGCCTGGAAGGCATCCAGG CCTCCATCCTTCGGGCACTGAGTGAGCACCAGGCACAGCCGAGGCTGGACGGTGCCCCCGAGCTGCTGGA CGCACTGGCTGACCAGCTGCCCCGGCTGCTAACCCGGGCCTCTGAGCTGCAGGCTGAATGTGCTGGGCTG CGCAAGGGACACAGCCTGCTGGGCCAGGGCCTCAGCACCCTGCAGAGTGAACAGGGTCGCCTCATCCAGC TTCTCTCTGAGAGTCAAGGTCACATGGCTCACCTGGTGAACTCAGTCAGTGATGTCCTGGAGGCTCTGCA GAGGGAGCGGGGCCTAGGCCGGCCCCGTGTCAAGGCTGACCTTCAGAGGGCCCCTTCCCGGGGAGCCCGG CCCCGAGGCTGTGCTAATGGCTCTCGGCCGCGGGACTGCCTGGATGTTCTCCTGAGTGGACAGCAGGATG ATGGTGTCTACTCTATCTTCCCCACTCACTACCCAGCTGGCTTCCAGGTCTACTGTGACATGCGCACTGA TGGTGGAGGCTGGACGGTATTTCAGCGCCGGGAAGATGGCTCTGTGAACTTTTTCCGAGGTTGGGAGGCG TACCGGGAGGGCTTCGGCAAGCTCACAGGAGAGCACTGGCTGGGGCTCAAGCGGATTCACGCCCTGACCA CACAAGCAGCATACGAGCTTCACGTGGACCTAGAAGACTTTGACAACGGCACCGCCTATGCCCACTACGG GAGTTTTGGTGTGGGCTTGTTCTCTGTGGACCCCGAGGAGGATGGGTACCCACTCACGGTGGCTGACTAC TCCGGCACCGCAGGTGACTCCCTCCTGAAGCACAGTGGCATGAGGTTTACCACCAAGGACCGGGACAGCG ACCACTCGGAGAACAACTGTGCCGCCTTCTACCGAGGAGCCTGGTGGTACCGCAACTGTCACACATCCAA CCTCAATGGCCAGTACCTGCGTGGTGCACACGCCTCCTACGCAGACGGCGTCGAGTGGTCCTCTTGGACG GGATGGCAGTATTCACTCAAGTTCTCGGAGATGAAGATCCGGCCGGTCCGTGAGGACCGCTAGACTGGCC CACTGCCCAGTGCCAGCGTCCTCTGGTTATGTCTAGTCCCTACACATCTCATCCCATGCCCACTGCTGCA AGAACATGCTCTGCCCACCTGTGCATGGCTGGTCTGCTCTTTAGTAGGGATGGCCCAGGGTCAGCCCTGA AACTCAGCTTCCTGAGCCAGTGACACTCCTTCCCCAACCAGGTCCCTGTCTATCAAGTGACATGCTCTTT GGTTCCTACCAGCGGAGCTGGCACCTGGCAACCCCAAATCCCACCTGCCCAGGCTTTGGTCCCTGTGCTT TGTCTGCTGCATCCTGGTAAGGCAGCATCTCCCATTCTTCCTGGCTTGGCAAAAACATCCAGAATTGGGG GCAGGCAGCACCTTGGTCCCCTCCATCAGATCAAAGTGGAAGGCTCAGACCTTCTCACCTCTGACACCTG TCTGCCCTAACCCCAATCCCTCAGGGCCTGGAGACCCTACCTCTTATCAGAGGACCTTGTGCAGCTGCCA CAGCTCTCTCTCATTTGTGGCCAACTGGGCCGTGGCACAGCTGTCTACAAAGCCCCAAGGCCAAGACCAG ACCCCTAGGCCACCCTTCCCTGGGTCTCCACAGACCTGGGGGTTTTTATTCTTCTGGTTGCTTTCAGAGC TCATCTGCTCTTTCCCACCTCAAACAAGGTCCACCTGCCCTCCTGCAGAGCACCCATGGGTCCTGCCCCA CATCATCTGCCTGTGGGGCAAGGGTGGGACTGGCCTAAGCCAGTGAGGACCTCCTGGGGTGAGGCTGTGC CAGGCTTTTGTGTTCTGCCGACCTCCATGGACTGACTCTAGGATCTTCTCAGAAGCCAGCCAGCCCTGGG ACTCAGCATGGCCCAAGACTACCATCTCTGCAGAGAGACTGCCCCCTGCTGGCTATCACGGACACTGCCA TCAGGGTCTAACAGGTGGGGTGGGGTGGAGGGGAGGGCAGGAGACAGAGCCCTCAAACAGGTTGGACATC TGGACATTTCCTTGTCCAGCCTTCTCAACACCTGCACGGGTGATCCCGCAGGAAGGCAGGCTGCAGCCCC GCCCTCAGCTACCTGCTTGGCAGCTGAGATGCTCTTCTGAAAGCCTGACAGGGGCTTTAAAAGAACTGGA TGGTAAGATGGCAATGGTGACCTCCTCTGTCTGGAGGCAGAGGCCCATGCCTTTCCTTTCTGCCAGACTT GTACCAAAGCCTGAAGCCACCGATGAACTGTGTGACCTGCTCAGTCCCTCACATTGGGCCTCGGGTCTTC AGCAAGGATCTGTAGCACCTGTGAGAGTCAAAGCCGTCCTAGGTGCTGGACAGGACTGGTTATGGTCCCG CGCTGGTGGCACGAAACATGAGTAGAGTAGCCAAGGTTCTGATGGGACAAGGGATACATAGGAAAGTCCC CTCCCATTCCCTCTCTGTCCCTGACACCTGGCACCTAGCTTCATTGCAGAGGTGTGTGGGAGCTTAAACA CATCCTGGCAGACACTACCCACCCCCGAGGCTGGTGCTAAAGTGGCTTCTGTTGCCAGCTGCCGCTGTAA GCGCTGCTCAGAAGTGCCAAGCGCTTTCTGATGTGGTATCAAACAAACTCCGTCGAGTGAAGCAACAGAT TCACACATGCAAGTGTGGGACAGGAGGGCTGTGGGCCAGGGCTGGGCTGCAGAATGCAGGAGCTGAAGCT CAGCCCATCAGGGCAGCTGGTGAAGGGTGACATGCATCCCTGTCTGGTCACATTGGAAATGACAGCCCTT CAGCCCAGCCACTGCCCCAGGGACACCAAGCTCTCTCCCAAGCCAGGCTAGTACTCTAGGGGGTGTGGTT TTGTCAAACGCTGGCCGAGTGGGCAGGAGTTAGTAGGGAGAGACCAGGTCAACAGTCCTTCACCTTCCTG GTGCACCCTCCAAGGGCAGGCGGGAGCACTGTCCCTGGGAGCACTATTCCTGCACACTGGGCCACAGCCT CCAGCCCTGGCTTTCATTCACTGGTCTGATGTCTGTGTAGGTGGCTGCCACCTGTGATCAGTGACCACGG GAAGCAGGAATGCTGGGAAGTTTGGGGGGCAGGACAGGTCCACTAAGAAGACATAATGTCAGTGGGCTGT GGTCCCTGATACCCCAGACCTACTTTGGTTTGTCAATGGAATGACTAACCAGGGTGAGTCTATGAAGTCA CCTGGCAGAGCCACACTGCTTATCTTCTTGGGAAGAGTCTCCACATCTCACACGAGGGTCTTGGCACTGT GGCTGTCTCTACTTTGCAAAGCATCGAAAATCTTTCCAAGCCTAGGTTGGCTTTGTGGATTCTACCAAAG GCCTCATAGCTGGGTACACCTGGGTCGTGCCAGTGGCCACCTAGACAGCATGCAGGGAGCAGACAGTGCC TTGGGTCCCCTGCAAACCTGGGCTGGTGAGTGACCAGTTAGAGCTGTGAGCCTCTCCTGTGGCATTAGTG GCTCGTGCGTGTGGGACACTAGTGTTTGTAGGTGGGAGTGTCATCTCCAGCTCCTGGCTCTTCCCTGCCC CTCATCTGTGTCACCCCAAGCCTCCAGGTGGAGAACGAGCCATCTGTGGCCATGGTCACTGCAGGACTTG GCCCACAACCAGCACTTCTAGAAGATAGCAGGGCCTTGGATAACCAGAAAGTCTATGAGCAACAGATGCC GTCCTCAAGATGACTTGACTCTGAGGTGGGAGATATGTATGAGCTAGGCCCACAGCTGCCCTGAGCCCTG TGATCTAAGGAGCAACATGCCAGCAGAAGTCTCATGGAACCCAGAAGTGTGATGAAGCAACATGGACCCA AAGTGCCCGGGGGCCTCTCAAAGCCTCATTCCTTCATCTGCCTTTGGCGCAGGTTGCCCGAGGTTCTGGT GGCCCAGCAACTGCAGGGATCCATAAATCCAGAGGCCAGGATTCAGGCTCAGTGGCTGTGAGTGGGGGTC CGACCTGAGGCTAGCTGTGCCAAGCAGAGCAGGTGTGCATGCTGTCAGATACAATGGGGCCCTGGGGCTG GAAGCAGCTCTGAGGGTCAGTGCAGCACCCCATGGGCAAACAGTGGGCCTAGTTGCTACTTGGGGCTGTG TGCACCCGGTGTCTTGTGTACCCTTGTCTTCAATAAAGTCTCGTGGTGACCCAGAAAAAAAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Notes:	The probe template was PCR amplified from IMAGE:6848779 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:6848779 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:12312 same embryo
	EMAGE:12311 same embryo
	EMAGE:12313 same embryo
	EurExpress:euxassay_010963 same experiment
	MGI:4824860 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