Variant report

Variant	rs9869409
Chromosome Location	chr3:179995001-179995002
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10937025	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705819	0.89[CEU][hapmap];0.85[CHD][hapmap]
rs11711435	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11919997	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11921001	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11928576	0.89[CEU][hapmap];0.85[CHD][hapmap]
rs11929432	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1525275	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16831291	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16831374	0.85[EUR][1000 genomes]
rs17695226	0.85[EUR][1000 genomes]
rs28828972	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3849422	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3849423	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73065312	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73065331	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73065342	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73065358	0.85[EUR][1000 genomes]
rs7647413	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9817362	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9817801	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9822150	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9870444	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9875212	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv997388	chr3:179899279-180172349	Enhancers Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv536817	chr3:179899279-180172349	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv878041	chr3:179983857-180097855	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179992600-179995600	Enhancers	Muscle Satellite Cultured Cells	--
2	chr3:179993000-179998600	Weak transcription	NHDF-Ad	bronchial
3	chr3:179993000-180002000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:179993600-179996200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:179993600-179998400	Weak transcription	HMEC	breast
6	chr3:179994200-179998600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr3:179994200-179999000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:179994400-179995200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:179994600-179995400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:179994800-179995200	Enhancers	Brain Angular Gyrus	brain
11	chr3:179994800-179995800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:179994800-179996000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:179994800-179996800	Enhancers	Brain Substantia Nigra	brain
14	chr3:179995000-179995800	Enhancers	GM12878-XiMat	blood

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