Variant report

Variant	rs6800143
Chromosome Location	chr3:133844946-133844947
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:133648897..133649424-chr3:133844815..133845666,3	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10935097	0.89[EUR][1000 genomes]
rs1131262	1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs13068409	0.91[EUR][1000 genomes]
rs35015318	0.92[EUR][1000 genomes]
rs3890774	0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs4072180	0.97[ASN][1000 genomes]
rs4077158	0.81[CEU][hapmap]
rs4280635	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs4324466	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682664	1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs4682666	0.90[ASN][1000 genomes]
rs4682668	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs4682669	0.87[ASN][1000 genomes]
rs56073423	0.89[ASN][1000 genomes]
rs6439465	0.94[ASN][1000 genomes]
rs6439466	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs6762690	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs6776502	0.90[ASN][1000 genomes]
rs6786384	0.89[EUR][1000 genomes]
rs6795164	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs6808085	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs7609611	0.89[ASN][1000 genomes]
rs7622046	0.89[ASN][1000 genomes]
rs7639683	0.81[CEU][hapmap]
rs9283588	0.93[ASN][1000 genomes]
rs9812461	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9818714	1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9822469	0.81[CEU][hapmap]
rs9822749	0.80[EUR][1000 genomes]
rs9823873	1.00[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs9825808	0.89[ASN][1000 genomes]
rs9832732	1.00[CHB][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs9839819	1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs9840170	0.89[EUR][1000 genomes]
rs9846664	0.83[EUR][1000 genomes]
rs9846871	0.94[EUR][1000 genomes]
rs9853568	1.00[CHB][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs9856298	0.95[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9856792	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs9858000	0.82[EUR][1000 genomes]
rs9858069	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9858450	1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs9858707	0.89[ASN][1000 genomes]
rs9860060	0.94[EUR][1000 genomes]
rs9860268	0.94[EUR][1000 genomes]
rs9877899	0.94[EUR][1000 genomes]
rs9882590	0.91[EUR][1000 genomes]
rs9882927	0.91[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv965344	chr3:133805086-133862489	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133827600-133862800	Weak transcription	Left Ventricle	heart
2	chr3:133838800-133847800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:133840600-133862800	Weak transcription	Right Ventricle	heart
4	chr3:133840800-133862800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:133842000-133847600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr3:133842000-133848000	Weak transcription	Ovary	ovary
7	chr3:133842000-133872600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:133842600-133847400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:133842600-133862800	Weak transcription	Adipose Nuclei	Adipose
10	chr3:133842600-133870600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:133842800-133847600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:133842800-133847600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:133842800-133872000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:133843000-133845800	Weak transcription	Aorta	Aorta
15	chr3:133843000-133847400	Weak transcription	Stomach Smooth Muscle	stomach
16	chr3:133843000-133847600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:133843000-133848000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:133843000-133853200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:133843000-133858600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:133843000-133871200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:133843000-133872600	Weak transcription	Gastric	stomach
22	chr3:133843200-133847800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:133843200-133848000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:133843200-133852000	Weak transcription	Placenta	Placenta
25	chr3:133843200-133853200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:133843200-133858800	Weak transcription	Pancreas	Pancrea
27	chr3:133843400-133847200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:133843400-133847200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr3:133843600-133848000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:133844800-133845200	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr3:133844800-133845200	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr3:133844800-133845400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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