Variant report

Variant	rs6867275
Chromosome Location	chr5:15007802-15007803
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:15003537..15006436-chr5:15007332..15010646,5	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10043444	0.81[EUR][1000 genomes]
rs10044822	0.94[ASN][1000 genomes]
rs10044904	0.92[ASN][1000 genomes]
rs10044907	0.94[ASN][1000 genomes]
rs10044908	0.94[ASN][1000 genomes]
rs10067400	0.83[ASN][1000 genomes]
rs10513194	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10866509	0.87[EUR][1000 genomes]
rs11741614	0.81[EUR][1000 genomes]
rs11744215	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11750471	0.81[EUR][1000 genomes]
rs13357328	0.81[EUR][1000 genomes]
rs16903773	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16903776	0.81[EUR][1000 genomes]
rs16903778	0.93[ASN][1000 genomes]
rs5010555	0.81[EUR][1000 genomes]
rs5010556	0.81[EUR][1000 genomes]
rs57219003	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59356093	0.81[EUR][1000 genomes]
rs62356077	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62356079	0.84[EUR][1000 genomes]
rs62356081	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62356082	0.82[EUR][1000 genomes]
rs6554868	0.81[EUR][1000 genomes]
rs6862081	0.82[EUR][1000 genomes]
rs6864877	0.92[ASN][1000 genomes]
rs6866660	0.82[EUR][1000 genomes]
rs6877954	0.93[ASN][1000 genomes]
rs6878138	0.91[ASN][1000 genomes]
rs6878288	0.93[ASN][1000 genomes]
rs6878430	0.93[ASN][1000 genomes]
rs6881461	0.82[EUR][1000 genomes]
rs6888138	0.82[EUR][1000 genomes]
rs73053946	0.92[ASN][1000 genomes]
rs73053947	0.92[ASN][1000 genomes]
rs73053951	0.93[ASN][1000 genomes]
rs73053957	0.93[ASN][1000 genomes]
rs7341022	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7341067	0.91[ASN][1000 genomes]
rs7341168	0.93[ASN][1000 genomes]
rs7708423	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7708528	0.94[CEU][hapmap];0.81[EUR][1000 genomes]
rs7715918	0.81[EUR][1000 genomes]
rs7716510	0.81[EUR][1000 genomes]
rs7727179	0.83[EUR][1000 genomes]
rs7727180	0.81[EUR][1000 genomes]
rs7727670	0.81[EUR][1000 genomes]
rs9312876	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9686327	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9687138	0.81[EUR][1000 genomes]
rs9687144	0.81[EUR][1000 genomes]
rs9687159	0.81[EUR][1000 genomes]
rs9687484	0.81[EUR][1000 genomes]
rs9688320	0.81[EUR][1000 genomes]
rs9688328	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv530221	chr5:14859687-15364470	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv432717	chr5:14887400-15126500	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1017579	chr5:14888997-15194335	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv461982	chr5:14943456-15044842	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv597262	chr5:14943456-15044842	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv470991	chr5:14949696-15022112	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv524142	chr5:14986700-15018537	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	5 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	chr5:14994600-15008600	Weak transcription	Placenta	Placenta
2	chr5:15001400-15008600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:15003000-15008000	Weak transcription	Aorta	Aorta
4	chr5:15003000-15008000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:15003200-15008200	Weak transcription	Brain Substantia Nigra	brain
6	chr5:15003200-15008600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:15004000-15008000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:15004000-15008000	Weak transcription	HepG2	liver
9	chr5:15004000-15008000	Weak transcription	HMEC	breast
10	chr5:15004000-15008400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr5:15004000-15008400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr5:15004200-15008000	Weak transcription	Liver	Liver
13	chr5:15004200-15008000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr5:15004200-15008000	Weak transcription	Stomach Mucosa	stomach
15	chr5:15004200-15008600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr5:15005000-15008800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr5:15005000-15009200	Weak transcription	Brain Angular Gyrus	brain
18	chr5:15005200-15008000	Weak transcription	NH-A	brain
19	chr5:15005200-15008200	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr5:15005200-15008600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr5:15005200-15008800	Weak transcription	Fetal Heart	heart
22	chr5:15005200-15008800	Weak transcription	Left Ventricle	heart
23	chr5:15005200-15008800	Weak transcription	Right Ventricle	heart
24	chr5:15005400-15008600	Weak transcription	Esophagus	oesophagus
25	chr5:15006400-15008000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr5:15006400-15008000	Enhancers	A549	lung
27	chr5:15006600-15008000	Enhancers	Osteobl	bone
28	chr5:15006800-15009000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:15007000-15008000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr5:15007200-15008000	Weak transcription	Fetal Muscle Leg	muscle
31	chr5:15007200-15008200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr5:15007400-15008200	Enhancers	Muscle Satellite Cultured Cells	--
33	chr5:15007400-15009600	Enhancers	Adipose Nuclei	Adipose
34	chr5:15007600-15009400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr5:15007600-15010000	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr5:15007800-15008000	Enhancers	Duodenum Smooth Muscle	Duodenum
37	chr5:15007800-15008400	Enhancers	Brain Germinal Matrix	brain
38	chr5:15007800-15008400	Enhancers	Hela-S3	cervix
39	chr5:15007800-15009200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr5:15007800-15009400	Enhancers	Placenta Amnion	Placenta Amnion
41	chr5:15007800-15009600	Enhancers	Rectal Mucosa Donor 29	rectum
42	chr5:15007800-15011000	Enhancers	Rectal Mucosa Donor 31	rectum

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