Variant report

Variant	rs9493870
Chromosome Location	chr6:134559192-134559193
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:134553108..134554693-chr6:134556354..134559341,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1626488	0.92[ASN][1000 genomes]
rs17063522	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17063538	1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1763499	1.00[JPT][hapmap]
rs58598912	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60742092	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73560862	0.92[ASN][1000 genomes]
rs73560865	0.92[ASN][1000 genomes]
rs73562927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321431	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9483664	0.92[ASN][1000 genomes]
rs9493858	1.00[JPT][hapmap]
rs9493867	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9493868	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493871	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][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	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1018677	chr6:134512542-134638259	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538445	chr6:134512542-134638259	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1023931	chr6:134512542-134668702	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538446	chr6:134512542-134668702	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr6:134551000-134564000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:134551400-134559600	Weak transcription	Adipose Nuclei	Adipose
3	chr6:134551400-134560200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:134551600-134561600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:134554800-134559200	Weak transcription	Brain Angular Gyrus	brain
6	chr6:134554800-134559200	Weak transcription	Brain Substantia Nigra	brain
7	chr6:134556400-134560200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:134557200-134559200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:134557200-134560200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:134557200-134560200	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:134557200-134561400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:134557400-134560200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:134557400-134560200	Weak transcription	Right Atrium	heart
14	chr6:134557400-134561800	Enhancers	Brain Hippocampus Middle	brain
15	chr6:134557600-134560200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:134557600-134560200	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr6:134557600-134560200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:134557600-134561600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:134557800-134560400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr6:134557800-134560400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:134557800-134561000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:134557800-134561600	Weak transcription	HMEC	breast
23	chr6:134557800-134562000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:134557800-134571000	Weak transcription	NH-A	brain
25	chr6:134558000-134559200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr6:134558000-134559400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:134558000-134559400	Weak transcription	NHDF-Ad	bronchial
28	chr6:134558000-134560000	Weak transcription	Primary T cells from cord blood	blood
29	chr6:134558000-134560200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:134558000-134560200	Weak transcription	K562	blood
31	chr6:134558000-134561000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr6:134558000-134561400	Weak transcription	NHEK	skin
33	chr6:134558000-134561600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:134558000-134561600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:134558200-134559200	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:134558200-134559400	Weak transcription	Brain Cingulate Gyrus	brain
37	chr6:134558200-134560000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr6:134558200-134560200	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr6:134558200-134561600	Weak transcription	GM12878-XiMat	blood
40	chr6:134558400-134560200	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr6:134558600-134560200	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr6:134558600-134560200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:134558800-134559400	Weak transcription	Primary B cells from peripheral blood	blood
44	chr6:134558800-134560200	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr6:134558800-134560200	Weak transcription	Pancreas	Pancrea
46	chr6:134559000-134559800	Enhancers	Brain Anterior Caudate	brain
47	chr6:134559000-134560000	Weak transcription	Primary B cells from cord blood	blood
48	chr6:134559000-134561400	Enhancers	Cortex derived primary cultured neurospheres	brain

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