Variant report

Variant	rs61752589
Chromosome Location	chr3:46245329-46245330
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46150790..46153435-chr3:46242926..46245585,2	MCF-7	breast:
2	chr3:46237492..46239096-chr3:46244929..46246702,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs17078681	1.00[EUR][1000 genomes]
rs2201148	1.00[EUR][1000 genomes]
rs3136664	1.00[EUR][1000 genomes]
rs3136665	1.00[EUR][1000 genomes]
rs41326147	1.00[EUR][1000 genomes]
rs41364446	1.00[EUR][1000 genomes]
rs41366344	1.00[EUR][1000 genomes]
rs41424051	1.00[EUR][1000 genomes]
rs41465848	1.00[EUR][1000 genomes]
rs41480548	1.00[EUR][1000 genomes]
rs4547740	1.00[EUR][1000 genomes]
rs56102061	1.00[EUR][1000 genomes]
rs56129454	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56947484	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57522944	1.00[EUR][1000 genomes]
rs58772082	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59047782	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59654809	1.00[EUR][1000 genomes]
rs61145486	1.00[EUR][1000 genomes]
rs6780714	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6793690	1.00[EUR][1000 genomes]
rs6796282	1.00[EUR][1000 genomes]
rs73833043	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833044	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833047	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833051	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833052	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833053	0.85[AMR][1000 genomes];1.00[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46235400-46247600	Weak transcription	Placenta	Placenta
2	chr3:46235400-46249600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:46239800-46249400	Weak transcription	Primary T cells from cord blood	blood
4	chr3:46241200-46246600	Genic enhancers	Primary monocytes fromperipheralblood	blood
5	chr3:46241600-46247400	Weak transcription	Brain Substantia Nigra	brain
6	chr3:46242400-46246800	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:46242800-46247400	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
8	chr3:46243000-46249000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:46243200-46246200	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr3:46243200-46246600	Weak transcription	Adipose Nuclei	Adipose
11	chr3:46243400-46247800	Weak transcription	Duodenum Mucosa	Duodenum
12	chr3:46243600-46247200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr3:46243800-46249400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr3:46244000-46246600	Weak transcription	GM12878-XiMat	blood
15	chr3:46244200-46246600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
16	chr3:46244400-46245400	ZNF genes & repeats	Fetal Thymus	thymus
17	chr3:46244400-46245400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr3:46244400-46245800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr3:46244600-46245400	ZNF genes & repeats	Lung	lung
20	chr3:46244600-46245600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:46244600-46245600	Strong transcription	Fetal Lung	lung
22	chr3:46244600-46245600	Strong transcription	Spleen	Spleen
23	chr3:46245000-46245600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:46245200-46248800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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