Variant report

Variant	rs17069741
Chromosome Location	chr6:140364969-140364970
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:140362168..140365003-chr6:140377211..140380163,3	MCF-7	breast:
2	chr6:140363202..140365064-chr6:140365355..140367836,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10499216	1.00[ASN][1000 genomes]
rs10499219	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1113096	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11967431	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11969633	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12523886	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12525793	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12526277	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12528420	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12529701	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12529920	0.86[EUR][1000 genomes]
rs1390500	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1496114	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17069706	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17069710	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17069727	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17069805	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17069893	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1879097	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2050716	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2328026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57789174	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59447713	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60747543	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62429521	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62429525	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62431062	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62431064	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62431065	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62431066	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62431098	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62431099	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62431110	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62431142	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6915764	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs732015	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73571530	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7770431	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1022987	chr6:140344229-140463916	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv970352	chr6:140363091-140366380	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	esv3395457	chr6:140364559-140368757	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140351400-140366600	Weak transcription	Aorta	Aorta
2	chr6:140353600-140365600	Weak transcription	Left Ventricle	heart
3	chr6:140358200-140366600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:140360800-140366400	Enhancers	Muscle Satellite Cultured Cells	--
5	chr6:140361200-140365400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:140361200-140365800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:140361200-140366800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:140361200-140366800	Enhancers	HMEC	breast
9	chr6:140361200-140367000	Enhancers	NHEK	skin
10	chr6:140361600-140365600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:140362200-140366400	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:140362400-140365000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:140362400-140366200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:140362800-140365600	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr6:140363000-140365000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:140363000-140366400	Enhancers	HSMM	muscle
17	chr6:140363200-140365600	Enhancers	NHLF	lung
18	chr6:140363200-140366800	Enhancers	Hela-S3	cervix
19	chr6:140363400-140370800	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr6:140363400-140370800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:140363600-140365000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr6:140363600-140365600	Enhancers	A549	lung
23	chr6:140364000-140365600	Enhancers	HSMMtube	muscle
24	chr6:140364000-140367200	Enhancers	NHDF-Ad	bronchial
25	chr6:140364200-140365200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:140364200-140365600	Enhancers	NH-A	brain
27	chr6:140364200-140365800	Enhancers	Osteobl	bone
28	chr6:140364200-140366600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:140364400-140365200	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr6:140364400-140365400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:140364400-140365600	Enhancers	Fetal Intestine Small	intestine
32	chr6:140364400-140365600	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr6:140364400-140365800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr6:140364400-140365800	Enhancers	Fetal Intestine Large	intestine
35	chr6:140364400-140366800	Enhancers	Fetal Heart	heart
36	chr6:140364400-140367000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:140364400-140367600	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr6:140364800-140365200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
39	chr6:140364800-140366600	Weak transcription	Small Intestine	intestine

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