Variant report

Variant	rs2196428
Chromosome Location	chr3:24484974-24484975
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs13070554	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13077437	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13099463	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2885448	0.83[EUR][1000 genomes]
rs35194357	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35317485	0.89[EUR][1000 genomes]
rs35570323	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35947386	0.92[EUR][1000 genomes]
rs4858117	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56101205	0.88[EUR][1000 genomes]
rs6781559	0.85[CEU][hapmap]
rs6807873	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7619134	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9831133	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9883790	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24458800-24490200	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:24477000-24493000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:24477200-24490400	Weak transcription	Aorta	Aorta
4	chr3:24477200-24493000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:24478200-24491400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:24478400-24490000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr3:24478400-24493400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:24480800-24486200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:24482600-24493000	Weak transcription	Right Atrium	heart
10	chr3:24482800-24488200	Weak transcription	Stomach Mucosa	stomach
11	chr3:24483000-24486000	Weak transcription	Psoas Muscle	Psoas
12	chr3:24483000-24490400	Weak transcription	Left Ventricle	heart
13	chr3:24483000-24490400	Weak transcription	Pancreas	Pancrea
14	chr3:24483000-24490400	Weak transcription	Right Ventricle	heart
15	chr3:24483200-24485000	Weak transcription	Liver	Liver
16	chr3:24483200-24487200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:24483200-24487200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:24483200-24487600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:24483600-24487800	Weak transcription	Fetal Intestine Large	intestine
20	chr3:24483600-24487800	Weak transcription	K562	blood
21	chr3:24484000-24488800	Weak transcription	Fetal Intestine Small	intestine
22	chr3:24484800-24485200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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