Variant report

Variant	rs17078689
Chromosome Location	chr3:46228579-46228580
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	chr3:46221407..46223602-chr3:46228126..46230272,2	MCF-7	breast:
2	chr3:46227017..46229164-chr3:46231189..46233480,3	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11914967	0.85[AMR][1000 genomes]
rs11918542	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929424	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929453	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929460	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078685	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3136663	0.92[AMR][1000 genomes]
rs3136672	0.84[AFR][1000 genomes]
rs34611049	0.95[AFR][1000 genomes]
rs56093858	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56277808	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56698532	0.89[AMR][1000 genomes]
rs57560436	0.85[AMR][1000 genomes]
rs59340338	0.85[AMR][1000 genomes]
rs60714453	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830780	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830781	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830796	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73833005	0.89[AMR][1000 genomes]
rs73833018	0.89[AMR][1000 genomes]
rs73833020	0.89[AMR][1000 genomes]
rs7615337	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7618935	0.85[AMR][1000 genomes]
rs7631658	0.85[AMR][1000 genomes]
rs7653045	0.85[AMR][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:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46223600-46231400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:46225200-46228800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:46225800-46229200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:46226200-46230600	Enhancers	Primary B cells from peripheral blood	blood
5	chr3:46226400-46229400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:46226400-46229400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:46226600-46229200	Weak transcription	NHEK	skin
8	chr3:46226600-46229200	Weak transcription	NHLF	lung
9	chr3:46227200-46230200	Enhancers	Primary B cells from cord blood	blood
10	chr3:46227400-46229400	Enhancers	Fetal Lung	lung
11	chr3:46227400-46229800	Enhancers	Dnd41	blood
12	chr3:46227800-46229800	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr3:46227800-46230000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:46228000-46229600	Enhancers	Primary hematopoietic stem cells	blood
15	chr3:46228000-46229600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:46228000-46229600	Flanking Active TSS	GM12878-XiMat	blood
17	chr3:46228200-46228600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr3:46228200-46228600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr3:46228400-46228600	Enhancers	NHDF-Ad	bronchial
20	chr3:46228400-46228800	Enhancers	HSMMtube	muscle
21	chr3:46228400-46229400	Enhancers	Fetal Thymus	thymus

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