Variant report

Variant	rs6669216
Chromosome Location	chr1:155454881-155454882
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	chr1:155444793..155446300-chr1:155452927..155455917,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10158037	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10158433	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10465954	0.83[AFR][1000 genomes]
rs13375379	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836851	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836867	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28438500	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28452675	0.83[AFR][1000 genomes]
rs28491466	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28507559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56035547	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56770523	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57334798	0.91[AFR][1000 genomes]
rs57519519	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57807227	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58086206	0.80[AFR][1000 genomes]
rs58621120	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58647953	0.83[AFR][1000 genomes]
rs58850753	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59633238	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59815288	1.00[AMR][1000 genomes]
rs59913551	0.89[AFR][1000 genomes]
rs59992966	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60568057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60818259	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61403978	0.96[AFR][1000 genomes]
rs61631408	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6427277	0.90[AFR][1000 genomes]
rs6658401	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6659913	0.87[AFR][1000 genomes]
rs6665660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6665939	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6692952	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72993428	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72993486	0.90[AFR][1000 genomes]
rs72995115	0.93[AFR][1000 genomes]
rs72995140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995165	0.89[AFR][1000 genomes]
rs72995166	0.88[AFR][1000 genomes]
rs72995171	0.92[AFR][1000 genomes]
rs72995173	0.88[AFR][1000 genomes]
rs72995177	0.95[AFR][1000 genomes]
rs73008931	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008968	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008999	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010906	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010909	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010921	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7517139	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7517777	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7532714	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7541017	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9988453	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9988540	0.88[AFR][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	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	esv1799856	chr1:155305059-155534616	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1795662	chr1:155305059-155540660	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1795478	chr1:155334933-155510824	Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	esv1803551	chr1:155334933-155522572	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	esv1800974	chr1:155367680-155510824	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv872468	chr1:155413304-155549562	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155424600-155462600	Weak transcription	Pancreas	Pancrea
2	chr1:155426400-155455800	Weak transcription	Stomach Mucosa	stomach
3	chr1:155441400-155463600	Weak transcription	Fetal Heart	heart
4	chr1:155441600-155460200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr1:155441600-155460400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:155442200-155457200	Weak transcription	Esophagus	oesophagus
7	chr1:155442200-155469800	Weak transcription	Small Intestine	intestine
8	chr1:155443200-155456000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr1:155443200-155470400	Weak transcription	Right Ventricle	heart
10	chr1:155447200-155460000	Weak transcription	Colonic Mucosa	Colon
11	chr1:155448600-155456000	Weak transcription	Aorta	Aorta
12	chr1:155449000-155469400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr1:155450000-155483000	Weak transcription	NHLF	lung
14	chr1:155450200-155456000	Weak transcription	Brain Substantia Nigra	brain
15	chr1:155451600-155466000	Weak transcription	NH-A	brain
16	chr1:155451800-155455600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr1:155452000-155456800	Weak transcription	Fetal Stomach	stomach
18	chr1:155452000-155457200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr1:155452000-155457400	Weak transcription	Osteobl	bone
20	chr1:155452000-155458200	Weak transcription	HUVEC	blood vessel
21	chr1:155452000-155488800	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr1:155452200-155455000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr1:155452200-155455200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr1:155452200-155455400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr1:155452200-155455600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:155452200-155455600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr1:155452200-155455600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr1:155452200-155456000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr1:155452200-155456800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr1:155452200-155456800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr1:155452200-155457800	Weak transcription	Brain Angular Gyrus	brain
32	chr1:155452200-155459200	Weak transcription	Fetal Brain Female	brain
33	chr1:155452200-155459600	Weak transcription	Fetal Muscle Leg	muscle
34	chr1:155452200-155460200	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr1:155452200-155460400	Weak transcription	Gastric	stomach
36	chr1:155452200-155460400	Weak transcription	Ovary	ovary
37	chr1:155452200-155460800	Weak transcription	Liver	Liver
38	chr1:155452200-155461200	Weak transcription	HepG2	liver
39	chr1:155452200-155461600	Weak transcription	Left Ventricle	heart
40	chr1:155452200-155464000	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr1:155452200-155464000	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr1:155452200-155464200	Weak transcription	Primary T cells from cord blood	blood
43	chr1:155452200-155464600	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr1:155452200-155467800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr1:155452200-155469000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr1:155452200-155469000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr1:155452200-155469000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr1:155452200-155469000	Weak transcription	NHEK	skin
49	chr1:155452200-155469200	Weak transcription	Colon Smooth Muscle	Colon
50	chr1:155452200-155469400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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