Variant report

Variant	rs9502965
Chromosome Location	chr6:1554827-1554828
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:1544489..1546894-chr6:1554034..1556093,2	MCF-7	breast:
2	chr6:1500696..1503622-chr6:1553281..1556067,2	MCF-7	breast:
3	chr6:1542695..1544862-chr6:1553978..1556042,2	MCF-7	breast:
4	chr6:1554542..1557319-chr6:2236589..2238217,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2569867	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2745592	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2745603	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2745605	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61437110	0.81[ASN][1000 genomes]
rs9501737	0.81[ASN][1000 genomes]
rs9501738	0.81[ASN][1000 genomes]
rs9501739	0.81[ASN][1000 genomes]
rs9502964	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9502966	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024111	chr6:1231850-1730146	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1021924	chr6:1254891-1736995	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv538082	chr6:1254891-1736995	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv917248	chr6:1365437-1627813	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1034039	chr6:1427061-1691837	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv538088	chr6:1427061-1691837	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv1027393	chr6:1446300-1692019	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv538089	chr6:1446300-1692019	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv883374	chr6:1454334-1558449	Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1016859	chr6:1460020-1645819	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
12	nsv883375	chr6:1478613-1558449	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv883376	chr6:1535043-1635082	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
14	nsv883377	chr6:1552705-1583600	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1527800-1555000	Weak transcription	Gastric	stomach
2	chr6:1549000-1555000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:1552600-1555000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:1553400-1555000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:1554000-1555800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:1554200-1555000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
7	chr6:1554200-1555200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
8	chr6:1554200-1555200	Flanking Active TSS	HSMMtube	muscle
9	chr6:1554200-1555400	Flanking Active TSS	Hela-S3	cervix
10	chr6:1554200-1555800	Active TSS	Rectal Smooth Muscle	rectum
11	chr6:1554400-1555000	Bivalent Enhancer	Fetal Thymus	thymus
12	chr6:1554400-1555000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr6:1554400-1555200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
14	chr6:1554400-1555200	Flanking Active TSS	Fetal Muscle Leg	muscle
15	chr6:1554400-1555400	Flanking Active TSS	Adipose Nuclei	Adipose
16	chr6:1554400-1555400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
17	chr6:1554400-1555800	Active TSS	Rectal Mucosa Donor 29	rectum
18	chr6:1554400-1556000	Active TSS	Stomach Smooth Muscle	stomach
19	chr6:1554400-1556000	Active TSS	A549	lung
20	chr6:1554600-1555000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr6:1554600-1555000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
22	chr6:1554600-1555000	Bivalent/Poised TSS	Primary B cells from peripheral blood	blood
23	chr6:1554600-1555000	Active TSS	Liver	Liver
24	chr6:1554600-1555000	Flanking Active TSS	Duodenum Mucosa	Duodenum
25	chr6:1554600-1555000	Active TSS	Skeletal Muscle Male	skeletal muscle
26	chr6:1554600-1555200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
27	chr6:1554600-1555200	Active TSS	NHEK	skin
28	chr6:1554600-1555400	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
29	chr6:1554600-1555400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:1554600-1555400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:1554600-1555400	Active TSS	Stomach Mucosa	stomach
32	chr6:1554600-1555600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:1554600-1555800	Active TSS	Primary T killer memory cells from peripheral blood	blood
34	chr6:1554600-1555800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr6:1554600-1555800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:1554600-1555800	Active TSS	Brain Angular Gyrus	brain
37	chr6:1554600-1555800	Active TSS	Brain Anterior Caudate	brain
38	chr6:1554600-1555800	Active TSS	Brain Inferior Temporal Lobe	brain
39	chr6:1554600-1555800	Active TSS	Brain Substantia Nigra	brain
40	chr6:1554600-1555800	Active TSS	Colon Smooth Muscle	Colon
41	chr6:1554600-1555800	Active TSS	Fetal Kidney	kidney
42	chr6:1554600-1555800	Active TSS	Fetal Lung	lung
43	chr6:1554600-1555800	Active TSS	Right Atrium	heart
44	chr6:1554600-1555800	Active TSS	NHDF-Ad	bronchial
45	chr6:1554600-1556000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:1554600-1556000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:1554600-1556000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr6:1554600-1556000	Active TSS	Aorta	Aorta
49	chr6:1554600-1556000	Active TSS	Colonic Mucosa	Colon
50	chr6:1554600-1556000	Active TSS	Duodenum Smooth Muscle	Duodenum

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