Variant report

Variant	rs580566
Chromosome Location	chr6:13450379-13450380
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	chr6:13448651..13450456-chr6:13485569..13487578,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187461	Chromatin interaction
ENSG00000237786	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13436985	1.00[AMR][1000 genomes]
rs1529446	1.00[AMR][1000 genomes]
rs1529447	1.00[AMR][1000 genomes]
rs28407076	1.00[AMR][1000 genomes]
rs58916275	1.00[AMR][1000 genomes]
rs6900571	1.00[AMR][1000 genomes]
rs6911516	1.00[AMR][1000 genomes]
rs73723716	1.00[AMR][1000 genomes]
rs73725837	1.00[AMR][1000 genomes]
rs7751772	1.00[AMR][1000 genomes]
rs7760365	1.00[AMR][1000 genomes]
rs9463815	1.00[AMR][1000 genomes]
rs9463817	1.00[AMR][1000 genomes]
rs9474268	1.00[AMR][1000 genomes]
rs9474275	1.00[AMR][1000 genomes]
rs9474283	1.00[AMR][1000 genomes]
rs9474287	1.00[AMR][1000 genomes]
rs9474288	1.00[AMR][1000 genomes]
rs9474289	1.00[AMR][1000 genomes]
rs9474290	1.00[AMR][1000 genomes]
rs9474292	1.00[AMR][1000 genomes]
rs9474296	1.00[AMR][1000 genomes]
rs9474297	1.00[AMR][1000 genomes]
rs9474298	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1028533	chr6:13239059-13484814	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv538136	chr6:13239059-13484814	Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1033620	chr6:13419730-13571788	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv462640	chr6:13426539-13519434	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv600994	chr6:13426539-13519434	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv470802	chr6:13441424-13519371	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13428800-13451200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:13433000-13454000	Weak transcription	Hela-S3	cervix
3	chr6:13438600-13462200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:13441600-13451600	Weak transcription	Gastric	stomach
5	chr6:13441600-13454400	Weak transcription	Placenta	Placenta
6	chr6:13444200-13450400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:13445200-13450800	Enhancers	Left Ventricle	heart
8	chr6:13445200-13457800	Enhancers	Right Atrium	heart
9	chr6:13445400-13453400	Weak transcription	NH-A	brain
10	chr6:13445400-13454000	Weak transcription	Primary T cells from cord blood	blood
11	chr6:13445400-13454000	Weak transcription	Pancreas	Pancrea
12	chr6:13445600-13454200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr6:13445600-13454200	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr6:13445600-13454800	Weak transcription	K562	blood
15	chr6:13445600-13461800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr6:13445800-13454200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:13445800-13454600	Weak transcription	Brain Germinal Matrix	brain
18	chr6:13446000-13450600	Enhancers	Lung	lung
19	chr6:13446200-13451400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr6:13446200-13454000	Weak transcription	Fetal Brain Female	brain
21	chr6:13446200-13454200	Weak transcription	HSMMtube	muscle
22	chr6:13446800-13450400	Weak transcription	Fetal Lung	lung
23	chr6:13447000-13451200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr6:13447000-13451400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:13447000-13451400	Weak transcription	Liver	Liver
26	chr6:13447000-13451400	Weak transcription	NHLF	lung
27	chr6:13447000-13454000	Weak transcription	Duodenum Mucosa	Duodenum
28	chr6:13447200-13450400	Weak transcription	Fetal Stomach	stomach
29	chr6:13447200-13452400	Weak transcription	Fetal Brain Male	brain
30	chr6:13447200-13454000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:13448000-13451000	Enhancers	Spleen	Spleen
32	chr6:13448200-13450400	Enhancers	HUVEC	blood vessel
33	chr6:13448200-13458200	Enhancers	Colon Smooth Muscle	Colon
34	chr6:13448600-13450600	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr6:13448600-13454000	Weak transcription	Thymus	Thymus
36	chr6:13448800-13451400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:13448800-13454000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:13448800-13454000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr6:13449000-13450400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr6:13449000-13450800	Weak transcription	Fetal Muscle Leg	muscle
41	chr6:13449000-13451200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:13449000-13453000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr6:13449000-13453400	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:13449000-13453400	Weak transcription	Small Intestine	intestine
45	chr6:13449000-13453800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr6:13449000-13453800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr6:13449000-13454000	Weak transcription	Brain Angular Gyrus	brain
48	chr6:13449000-13454000	Weak transcription	Brain Anterior Caudate	brain
49	chr6:13449000-13454400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr6:13449000-13454400	Weak transcription	Brain Substantia Nigra	brain

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