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EMAGE:1605

Zkscan16 zinc finger with KRAB and SCAN domains 16 ( MGI:3510405)
TS18 (10.5 dpc)
in situ hybridisation

Data Images
EMAGE:1605
1384d2.jpg This embryo was treated with ProteinaseK for either 3min or 30min.

Expression pattern clarity: two stars
Find spatially similar wholemount expression patterns: Find spatially similar wholemount patterns
Expression Pattern Description
Spatial Annotation:
EMAGE:1605Annotation colour key:  
strong strong      
gene expression moderate moderate    
gene expression weak weak        
gene expression possible possible    
gene expression not detected not detected
wholemount mapping

Download individual expression domains:
1605_wholemount_strong_3D_1.wlz
1605_wholemount_moderate_3D_1.wlz
1605_wholemount_weak_3D_1.wlz
1605_wholemount_possible_3D_1.wlz
1605_wholemount_notDetected_3D_1.wlz
(what is wlz format?)
Download all expression domains: EMAGE:1605_all_domains.zip
Find spatially similar wholemount expression patterns:  EMAGE spatially similar wholemount patterns
Morphological match to the template: one star
Text Annotation:
StructureLevelPatternNotes
central nervous system
possible possible
Authors stated that in some instances they could not determine expression levels with certainty.
Annotation Validation: EMAGE Editor
Detection Reagent
Type:in situ hybridisation probe
Identifier:MGI:3510416
Entity Detected:Zkscan16, zinc finger with KRAB and SCAN domains 16 ( MGI:3510405)
Sequence:sense strand is shown

>MGI:3510416
TTACTCGCAGGAAGAAGGACCCAGAAAAACCCTGAATCAACTCTGGGAACTCTGCAAGCAGTGGCTGAGA
CCAGACATTCACACCAAAGAGCAGATCTTAGAGCTGTTAGTGTTTGAGCAGTTCCTGAGGGTTCTGCCTG
GAGAGATGAGGATTTGGGTGAATTCTCAGCATCCTGGGAGTAGTGTGGAGGTGGTGACCCTGGTAGAAGA
CTTGAACCAAACACTTGAAGAAAAGGAAGATCTCAGCACTCAGGCTTCCGCAGTTTGCAAAGAGGAGGAT
TTGGGAGAAGATGCAATGGTGGTGGTGGTGATGGCGTCACCAGATCCTGAGCCACGTGAATCTGTAACAT
TTGAGGATGTGTCTGTGGATTTCTCCAGAGGAGAGTGGAAGCTACTGGAACCATCTCAAAGAGAGCTATA
TAAGGAAGTGCTGCTGGAAAACTTAGGGACCCTAGAGTTTTTGGAGAGTGAGTCTAGACGTGAATTGGAT
GCTTTTATGGAAGGCTTGACTTTAGAGAAAACAGTGGAGTACTGCTTCAGGGATGGTGGTTATGGCTTGA
AGACAGAATTCCAGAGGCGACATGGCAAACCCAAGAAAGATCATGGCAAGCGGAGTAGCCATGAGAATAG
AGAATCTGAGACAGAAGGGACCTCCTCTGGGAAGAGAGTCAAGCAGACTTCTGACACACTCAAACATCGG
AAAGCCTCCTTATCTAAGATGTCTCAGAGGTCCAAGGAAGGCAAGAAGCCCTTCAGCTTTC
nt 165 - nt 925 of XM_143800.2
Notes:The template DNA sequence was PCR amplified from E13.5 or P0 mouse brain, embryonic kidney or testis cDNA using: 5' primer: TTACTCGCAGGAAGAAGGACCC 3'primer: GAAAGCTGAAGGGCTTCTTGCC. Editor's Note: Original information from the authors states that the two primers above were used to generate a 760bp fragment (nt141-901 in XM_143800). Pairwise comparisons of these two primer sequences against all 3 versions of XM_143800 identifies a different sized fragment in each case: 850bp (nt165-1015) in XM_143800.1; 760bp (nt165-925) in XM_143800.2 and 871bp (nt165-1036) in XM_143800.3. Because the primer pair generate a correct sized fragment in version 2, this and the corresponding nt co-ordinates have been used above to define the nucleotide sequence of the probe.
Chemistry:RNA
Strand:antisense
Label:digoxigenin
Specimen
Organism:mouse
Strain:C57BL
Age:10.5 dpc
Theiler Stage:TS18
Mutations:none (wild-type)
Preparation:wholemount
Procedures
Fixation:4% paraformaldehyde
Staining procedure:alkaline phosphatase + NBT/BCIP
General Information
Authors:Yu J., Tenzen T., Gray P.A., Fu H., Luo P., Zhao Q., Ferrari A., Yuk D.I., Tsung E.F., Cai Z., Alberta J.A., Cheng L.P., Liu Y., Stenman J.M., Valerius M.T., Billings N., Kim H.A., Greenberg M.E., Rowitch D.H., Stiles C.D., Ma Q., McMahon A.P. Indexed by GXD, Spatially mapped by EMAGE.
Principal investigator:Andrew P. McMahon, Molecular and Cellular Biology, Harvard, Department of Molecular and Cellular Biology Harvard University 16 Divinity Ave Room 1059, Cambridge, U.S.A MA 02138
Submitted by:EMAGE EDITOR, Institute of Genetics and Molecular Medicine, Western General Hospital, Crewe Road, Edinburgh, UK EH4 2XU
Experiment type:screen
References:[ doi:10.1126/science.1104935] [ PMID:15618518] Gray PA, 2004 Mouse brain organization revealed through direct genome-scale TF expression analysis. Science (306):2255-7
Acknowledgments:This work was supported by the Charles Dana Foundation, the National Institute of Neurological Disorders and Stroke (QM, CDS, DHR & APM), the National Institute of Dental and Craniofacial Research (QM), the National Institute of Diabetes and Digestive and Kidney Diseases (APM), a Ford Foundation Postdoctoral Fellowship for Minorities (PAG), a Parker B. Francis Fellowship in Pulmonary Medicine (PAG) and the Pew Trust (QM).
Links:MGI:3510431 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 SourceEMAGE