Variant report

Variant	rs336572
Chromosome Location	chr3:161068014-161068015
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160992668..160995441-chr3:161067329..161069400,3	MCF-7	breast:

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1026572	0.81[CEU][hapmap]
rs10804790	0.84[EUR][1000 genomes]
rs1154701	0.81[CEU][hapmap]
rs13083229	0.85[CEU][hapmap];0.89[TSI][hapmap]
rs1382427	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs1382428	0.83[EUR][1000 genomes]
rs1478565	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs1478568	0.85[CEU][hapmap];0.96[CHD][hapmap];0.80[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes]
rs1600209	0.84[EUR][1000 genomes]
rs163327	0.84[CEU][hapmap]
rs163328	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs189270	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs1993891	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs28515190	0.82[EUR][1000 genomes]
rs336541	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336543	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336548	0.84[EUR][1000 genomes]
rs336551	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs336561	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs336567	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336568	0.81[AMR][1000 genomes]
rs336569	0.84[EUR][1000 genomes]
rs336570	0.96[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs336577	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs336579	0.83[EUR][1000 genomes]
rs336580	0.91[CEU][hapmap];0.81[AMR][1000 genomes]
rs336583	0.96[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs336585	0.96[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs336586	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs336589	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336590	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336591	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs336593	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs339101	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs339114	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3849524	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs4273380	0.96[CEU][hapmap]
rs4290817	0.85[CEU][hapmap]
rs4370045	0.96[CEU][hapmap]
rs4414866	0.87[CEU][hapmap]
rs4493449	0.96[CEU][hapmap]
rs456611	0.96[CEU][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes]
rs457272	0.82[EUR][1000 genomes]
rs459515	0.81[AMR][1000 genomes]
rs459697	0.83[EUR][1000 genomes]
rs4597724	0.96[CEU][hapmap]
rs460165	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs460508	0.96[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs462514	0.81[CEU][hapmap];0.81[TSI][hapmap];0.81[AMR][1000 genomes]
rs463928	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs464766	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs466399	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs466626	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4856714	0.85[CEU][hapmap]
rs4856767	0.85[CEU][hapmap]
rs4856768	0.81[AMR][1000 genomes]
rs62279921	0.90[EUR][1000 genomes]
rs6441373	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs6765269	0.96[CEU][hapmap]
rs6774276	0.80[CEU][hapmap]
rs6775627	0.96[CEU][hapmap]
rs6789388	0.81[CEU][hapmap]
rs6791213	0.85[CEU][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs6794601	0.96[CEU][hapmap]
rs6809256	0.82[EUR][1000 genomes]
rs7611367	0.81[CEU][hapmap]
rs7613358	0.85[CEU][hapmap];0.80[JPT][hapmap]
rs7615592	0.96[CEU][hapmap]
rs7623206	0.96[CEU][hapmap]
rs7631479	0.84[CEU][hapmap]
rs7632797	0.81[CEU][hapmap]
rs7633186	0.81[CEU][hapmap]
rs7638668	0.84[EUR][1000 genomes]
rs7647327	0.81[EUR][1000 genomes]
rs7652267	0.85[CEU][hapmap];0.89[TSI][hapmap]
rs7653233	0.80[EUR][1000 genomes]
rs7653361	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs899275	0.83[EUR][1000 genomes]
rs975323	0.82[EUR][1000 genomes]
rs9790314	0.81[EUR][1000 genomes]
rs9815222	0.85[CEU][hapmap]
rs9821201	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs9839527	0.81[AMR][1000 genomes]
rs9850455	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs9870059	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9872514	0.96[CEU][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
4	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161058200-161072200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:161059800-161089200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:161060600-161070200	Weak transcription	Esophagus	oesophagus
4	chr3:161064400-161083000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:161065400-161069200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:161065600-161068200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:161065600-161069000	Enhancers	NHDF-Ad	bronchial
8	chr3:161065800-161068200	Enhancers	Osteobl	bone
9	chr3:161065800-161068800	Enhancers	NH-A	brain
10	chr3:161065800-161069000	Enhancers	HMEC	breast
11	chr3:161065800-161069200	Enhancers	NHEK	skin
12	chr3:161065800-161069600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:161066000-161068800	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr3:161066200-161068400	Enhancers	Stomach Mucosa	stomach
15	chr3:161066200-161068600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:161066200-161069400	Enhancers	Hela-S3	cervix
17	chr3:161066400-161068200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:161066600-161068800	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr3:161066600-161069200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr3:161066800-161068200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:161066800-161068400	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:161066800-161068600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:161066800-161068600	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr3:161066800-161068600	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr3:161066800-161068600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr3:161066800-161068800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr3:161067000-161068400	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr3:161067000-161068600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr3:161067000-161068800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
30	chr3:161067000-161069400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:161067200-161068200	Bivalent Enhancer	Dnd41	blood
32	chr3:161067200-161068200	Enhancers	NHLF	lung
33	chr3:161067200-161068400	Enhancers	Primary T cells from cord blood	blood
34	chr3:161067200-161069000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr3:161067400-161068200	Enhancers	HSMM	muscle
36	chr3:161067400-161068600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr3:161067600-161068200	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr3:161067600-161068200	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr3:161067600-161068400	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr3:161067600-161068400	Enhancers	HepG2	liver
41	chr3:161067800-161068200	Active TSS	A549	lung
42	chr3:161068000-161068400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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