Variant report

Variant	rs6882698
Chromosome Location	chr5:108309307-108309308
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:108300744..108303743-chr5:108308321..108310024,2	MCF-7	breast:

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10043207	0.82[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs10062069	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs10447249	0.85[ASN][1000 genomes]
rs10515394	0.82[CHB][hapmap]
rs11948270	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11948684	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11951285	0.82[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs11951595	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11955924	0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11956572	0.82[ASN][1000 genomes]
rs11956900	1.00[ASN][1000 genomes]
rs11958129	0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11960400	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12109934	0.82[CHB][hapmap]
rs12152788	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12153527	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12153646	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12186663	1.00[ASN][1000 genomes]
rs12188107	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12188521	0.91[ASN][1000 genomes]
rs1366081	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs17534347	0.91[ASN][1000 genomes]
rs17534396	0.91[ASN][1000 genomes]
rs1896582	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs2416196	0.82[CHB][hapmap]
rs2416197	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs3797827	0.91[ASN][1000 genomes]
rs3797830	0.91[ASN][1000 genomes]
rs3797832	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs3797833	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs3797834	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs3797837	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs3797847	1.00[JPT][hapmap]
rs3822684	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3822685	1.00[JPT][hapmap]
rs56083128	0.91[ASN][1000 genomes]
rs56382548	0.95[ASN][1000 genomes]
rs57221554	0.95[ASN][1000 genomes]
rs58255942	0.91[ASN][1000 genomes]
rs58499805	0.95[ASN][1000 genomes]
rs59409290	0.91[ASN][1000 genomes]
rs60584949	0.95[ASN][1000 genomes]
rs61304250	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6865572	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs6867147	1.00[ASN][1000 genomes]
rs6869929	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6872299	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6883442	0.82[CHB][hapmap]
rs6884133	1.00[JPT][hapmap]
rs6886017	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6889213	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6893501	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs72789336	0.98[ASN][1000 genomes]
rs72789338	1.00[ASN][1000 genomes]
rs72789339	1.00[ASN][1000 genomes]
rs72790513	1.00[ASN][1000 genomes]
rs72790518	0.95[ASN][1000 genomes]
rs72790522	0.95[ASN][1000 genomes]
rs72790537	0.95[ASN][1000 genomes]
rs72790543	0.95[ASN][1000 genomes]
rs72790544	0.95[ASN][1000 genomes]
rs72790554	0.91[ASN][1000 genomes]
rs72790558	0.91[ASN][1000 genomes]
rs72790564	0.91[ASN][1000 genomes]
rs72790569	0.91[ASN][1000 genomes]
rs72790570	0.91[ASN][1000 genomes]
rs72790571	0.91[ASN][1000 genomes]
rs72790572	0.91[ASN][1000 genomes]
rs73778341	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73778362	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73778371	0.98[ASN][1000 genomes]
rs73778393	0.91[ASN][1000 genomes]
rs73778394	0.91[ASN][1000 genomes]
rs73779105	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73779109	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73779112	0.91[ASN][1000 genomes]
rs73779120	0.91[ASN][1000 genomes]
rs73780404	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73780405	0.95[ASN][1000 genomes]
rs73780406	0.95[ASN][1000 genomes]
rs73781919	0.91[ASN][1000 genomes]
rs73781924	0.91[ASN][1000 genomes]
rs7702557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7709840	0.84[JPT][hapmap]
rs7714599	1.00[JPT][hapmap]
rs7718925	1.00[JPT][hapmap]
rs7719229	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7723580	0.95[ASN][1000 genomes]
rs7723765	0.82[CHB][hapmap]
rs7725263	0.82[CHB][hapmap]
rs7725708	0.83[ASN][1000 genomes]
rs7729380	1.00[JPT][hapmap]
rs7733971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7734437	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9688204	0.95[ASN][1000 genomes]
rs9688214	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9885203	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016343	chr5:108220116-108364687	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv882691	chr5:108229760-108366473	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108203800-108323400	Weak transcription	Primary B cells from cord blood	blood
2	chr5:108217600-108323200	Weak transcription	Left Ventricle	heart
3	chr5:108254000-108311200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:108277600-108322400	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr5:108279200-108325600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr5:108281000-108313400	Weak transcription	Adipose Nuclei	Adipose
7	chr5:108282200-108324600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr5:108282400-108327200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr5:108283400-108319000	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr5:108287800-108310000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr5:108289200-108318600	Weak transcription	NHDF-Ad	bronchial
12	chr5:108290000-108313600	Weak transcription	Aorta	Aorta
13	chr5:108290000-108322000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr5:108290000-108328800	Weak transcription	Esophagus	oesophagus
15	chr5:108293400-108325600	Weak transcription	NHEK	skin
16	chr5:108294400-108329400	Weak transcription	Brain Hippocampus Middle	brain
17	chr5:108295200-108319400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:108295800-108316600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr5:108296600-108311800	Weak transcription	HSMMtube	muscle
20	chr5:108297000-108313400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr5:108298000-108316400	Weak transcription	Brain Substantia Nigra	brain
22	chr5:108298200-108315800	Weak transcription	HepG2	liver
23	chr5:108299600-108328800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr5:108300400-108314200	Weak transcription	NH-A	brain
25	chr5:108301400-108328600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr5:108301600-108361200	Weak transcription	Primary T cells from cord blood	blood
27	chr5:108301800-108318600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr5:108302200-108330200	Weak transcription	Stomach Smooth Muscle	stomach
29	chr5:108303000-108310000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr5:108303000-108313600	Weak transcription	Lung	lung
31	chr5:108303000-108318800	Weak transcription	Brain Angular Gyrus	brain
32	chr5:108303000-108319400	Weak transcription	HSMM	muscle
33	chr5:108303000-108329000	Weak transcription	Gastric	stomach
34	chr5:108303200-108311000	Weak transcription	Dnd41	blood
35	chr5:108303200-108315400	Weak transcription	Fetal Stomach	stomach
36	chr5:108303200-108318800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr5:108303200-108321200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr5:108303200-108322200	Weak transcription	Pancreas	Pancrea
39	chr5:108303200-108322400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr5:108303200-108331800	Weak transcription	Ovary	ovary
41	chr5:108303400-108312400	Weak transcription	Fetal Muscle Leg	muscle
42	chr5:108303600-108315600	Weak transcription	HMEC	breast
43	chr5:108303800-108321000	Weak transcription	Fetal Lung	lung
44	chr5:108303800-108322000	Weak transcription	Primary hematopoietic stem cells	blood
45	chr5:108303800-108322200	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr5:108304000-108328800	Weak transcription	Fetal Intestine Small	intestine
47	chr5:108308400-108328800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr5:108308400-108336000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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