Variant report

Variant	rs1883235
Chromosome Location	chr6:11357449-11357450
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:11229074..11235774-chr6:11355894..11361748,7	MCF-7	breast:
2	chr6:11344982..11346755-chr6:11356933..11360396,3	MCF-7	breast:
3	chr6:11357315..11359191-chr6:11373053..11375273,2	K562	blood:
4	chr6:11355836..11357922-chr6:11365325..11366984,2	MCF-7	breast:
5	chr6:11356223..11359281-chr6:11494815..11498233,5	MCF-7	breast:
6	chr6:11229225..11235286-chr6:11354946..11358883,9	MCF-7	breast:
7	chr6:11355983..11357680-chr6:11424097..11426477,2	MCF-7	breast:
8	chr6:11339317..11341448-chr6:11355091..11357842,2	MCF-7	breast:
9	chr6:11341903..11348078-chr6:11354165..11360055,8	MCF-7	breast:
10	chr6:11356092..11358157-chr6:11415666..11417240,2	MCF-7	breast:
11	chr6:11356402..11359256-chr6:11386897..11390575,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000111859	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12661144	1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60191575	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61543598	0.91[EUR][1000 genomes]

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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11353200-11358600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr6:11353200-11359000	Genic enhancers	Primary B cells from peripheral blood	blood
3	chr6:11353600-11358800	Enhancers	Primary T cells fromperipheralblood	blood
4	chr6:11353600-11359200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:11353800-11357600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:11353800-11358600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:11353800-11360000	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr6:11354000-11358200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr6:11354200-11358200	Enhancers	Primary T cells from cord blood	blood
10	chr6:11354800-11357800	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr6:11354800-11359200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:11355000-11358200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:11355000-11364000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:11355000-11367400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr6:11355200-11359000	Weak transcription	HMEC	breast
16	chr6:11355200-11359200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:11355200-11360000	Weak transcription	Right Ventricle	heart
18	chr6:11355200-11360400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:11355200-11361000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:11355200-11365200	Weak transcription	Left Ventricle	heart
21	chr6:11355200-11370800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:11355400-11359400	Weak transcription	Thymus	Thymus
23	chr6:11356000-11358200	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr6:11356000-11360000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr6:11356200-11357600	Enhancers	Right Atrium	heart
26	chr6:11356200-11357800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr6:11356200-11358000	Enhancers	Placenta Amnion	Placenta Amnion
28	chr6:11356200-11358200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr6:11356200-11358200	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr6:11356400-11357800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:11356400-11357800	Enhancers	HUVEC	blood vessel
32	chr6:11356400-11357800	Enhancers	NHEK	skin
33	chr6:11356400-11358000	Enhancers	Small Intestine	intestine
34	chr6:11356400-11359800	Enhancers	Stomach Mucosa	stomach
35	chr6:11356600-11357600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
36	chr6:11356600-11357600	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:11356600-11357800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:11356600-11358200	Enhancers	Duodenum Mucosa	Duodenum
39	chr6:11357000-11357600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:11357000-11357600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:11357000-11357600	Genic enhancers	GM12878-XiMat	blood
42	chr6:11357000-11357800	Enhancers	Primary B cells from cord blood	blood
43	chr6:11357000-11357800	Enhancers	Adipose Nuclei	Adipose
44	chr6:11357000-11358200	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr6:11357000-11358800	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr6:11357000-11360400	Enhancers	Placenta	Placenta
47	chr6:11357200-11357600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
48	chr6:11357200-11357600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
49	chr6:11357200-11357600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
50	chr6:11357200-11357600	Enhancers	Aorta	Aorta

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