Variant report

Variant	rs6766168
Chromosome Location	chr3:105526067-105526068
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	chr3:105525619..105527234-chr3:105585628..105587643,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11919893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11926659	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496588	0.81[CEU][hapmap]
rs12497428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13090949	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326550	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13433776	1.00[CEU][hapmap];0.84[CHB][hapmap];0.83[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1503923	0.81[ASN][1000 genomes]
rs16851596	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16851705	0.86[ASN][1000 genomes]
rs16851706	0.83[ASN][1000 genomes]
rs2120103	0.84[CHB][hapmap];0.88[JPT][hapmap];0.93[ASN][1000 genomes]
rs2120104	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2301034	0.82[CHB][hapmap]
rs2399056	1.00[CEU][hapmap]
rs6437616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6776593	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7634195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs894541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9811776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814582	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9837243	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9846445	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849559	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9872895	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9880744	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105483200-105555200	Weak transcription	Placenta	Placenta
2	chr3:105505000-105527800	Weak transcription	Pancreas	Pancrea
3	chr3:105505000-105548200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:105509800-105527800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:105511400-105566400	Weak transcription	Aorta	Aorta
6	chr3:105512200-105527200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr3:105512200-105534200	Weak transcription	Left Ventricle	heart
8	chr3:105515400-105528200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:105515400-105539000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr3:105517800-105527800	Weak transcription	Fetal Kidney	kidney
11	chr3:105517800-105528200	Weak transcription	Brain Substantia Nigra	brain
12	chr3:105517800-105528400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:105519200-105541600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:105519400-105527800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:105520800-105531400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:105521200-105527800	Weak transcription	Fetal Lung	lung
17	chr3:105521200-105530200	Weak transcription	HMEC	breast
18	chr3:105521200-105531200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr3:105521200-105536000	Weak transcription	Right Ventricle	heart
20	chr3:105521200-105546800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:105521400-105528200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:105521400-105529200	Weak transcription	Psoas Muscle	Psoas
23	chr3:105521400-105530200	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr3:105521400-105541200	Weak transcription	Fetal Muscle Leg	muscle
25	chr3:105521400-105542000	Weak transcription	Fetal Stomach	stomach
26	chr3:105521600-105528000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr3:105521600-105530200	Weak transcription	Primary B cells from peripheral blood	blood
28	chr3:105522000-105527000	Weak transcription	Primary B cells from cord blood	blood
29	chr3:105522200-105528400	Weak transcription	Fetal Heart	heart
30	chr3:105522400-105526600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr3:105522400-105529800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr3:105522400-105533800	Weak transcription	Brain Germinal Matrix	brain
33	chr3:105522400-105541200	Weak transcription	Primary T cells from cord blood	blood
34	chr3:105523000-105530000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr3:105523800-105526200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:105524000-105529000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:105524000-105530800	Weak transcription	NH-A	brain
38	chr3:105524200-105526200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:105524200-105526200	Enhancers	Muscle Satellite Cultured Cells	--
40	chr3:105524200-105532200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr3:105524400-105526200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:105524400-105526400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr3:105524400-105527000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr3:105524600-105526800	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr3:105524600-105527800	Weak transcription	Small Intestine	intestine
46	chr3:105524600-105530000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr3:105524600-105530200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr3:105524600-105541600	Weak transcription	Right Atrium	heart
49	chr3:105524800-105526400	Enhancers	Dnd41	blood
50	chr3:105524800-105527000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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