Variant report

Variant	rs59543599
Chromosome Location	chr6:16666785-16666786
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	chr6:16653572..16656389-chr6:16665170..16667929,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs9350013	1.00[AMR][1000 genomes]
rs9350014	1.00[AMR][1000 genomes]
rs9367924	0.87[ASN][1000 genomes]
rs9370919	0.93[ASN][1000 genomes]
rs9396703	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396704	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9396705	0.93[ASN][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	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16584000-16670000	Weak transcription	Fetal Brain Male	brain
2	chr6:16636800-16667400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:16636800-16669400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:16636800-16672600	Weak transcription	Gastric	stomach
5	chr6:16641800-16670400	Weak transcription	Fetal Brain Female	brain
6	chr6:16647000-16670000	Weak transcription	Pancreas	Pancrea
7	chr6:16653000-16669400	Weak transcription	Thymus	Thymus
8	chr6:16653800-16675000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:16655800-16667800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:16656000-16667400	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:16658200-16667400	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:16658200-16670000	Weak transcription	Left Ventricle	heart
13	chr6:16659000-16670000	Weak transcription	Ovary	ovary
14	chr6:16659200-16667800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr6:16660200-16670400	Weak transcription	Fetal Lung	lung
16	chr6:16660600-16667600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:16660600-16669600	Weak transcription	Stomach Mucosa	stomach
18	chr6:16660800-16667800	Weak transcription	Osteobl	bone
19	chr6:16660800-16669200	Weak transcription	NH-A	brain
20	chr6:16660800-16670200	Weak transcription	Liver	Liver
21	chr6:16661000-16668800	Weak transcription	Hela-S3	cervix
22	chr6:16661000-16669200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr6:16662000-16667800	Weak transcription	Right Ventricle	heart
24	chr6:16662200-16667200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:16662200-16667400	Weak transcription	NHEK	skin
26	chr6:16662200-16667800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:16662200-16667800	Weak transcription	Fetal Stomach	stomach
28	chr6:16662200-16668000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr6:16662200-16668000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr6:16662200-16669000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:16662200-16669200	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr6:16662200-16669200	Weak transcription	Primary T cells from cord blood	blood
33	chr6:16662200-16669200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:16662200-16669200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:16662200-16669200	Weak transcription	Fetal Kidney	kidney
36	chr6:16662200-16669400	Weak transcription	Brain Hippocampus Middle	brain
37	chr6:16662200-16669400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:16662200-16669400	Weak transcription	HSMM	muscle
39	chr6:16662200-16670000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr6:16662200-16670000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:16662200-16670000	Weak transcription	Brain Anterior Caudate	brain
42	chr6:16662200-16670200	Weak transcription	Aorta	Aorta
43	chr6:16662200-16670200	Weak transcription	Esophagus	oesophagus
44	chr6:16662200-16670400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr6:16662200-16684000	Weak transcription	Fetal Muscle Trunk	muscle
46	chr6:16662200-16684000	Weak transcription	Placenta	Placenta
47	chr6:16662200-16685200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr6:16662200-16699600	Weak transcription	Fetal Intestine Large	intestine
49	chr6:16662400-16667400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:16662400-16667600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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