Variant report

Variant	rs6792180
Chromosome Location	chr3:46228074-46228075
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	chr3:46227017..46229164-chr3:46231189..46233480,3	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs13061548	0.82[AFR][1000 genomes]
rs13089907	0.82[AFR][1000 genomes]
rs13090848	0.82[AFR][1000 genomes]
rs17078681	0.85[AFR][1000 genomes]
rs17078691	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17078693	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34013035	0.82[AFR][1000 genomes]
rs34198655	0.82[AFR][1000 genomes]
rs34920132	0.81[AFR][1000 genomes]
rs35111399	0.95[AFR][1000 genomes]
rs41360244	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41364446	0.84[AFR][1000 genomes]
rs41390044	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41416345	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41446946	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4547740	0.85[AFR][1000 genomes]
rs56102061	0.85[AFR][1000 genomes]
rs57522944	0.85[AFR][1000 genomes]
rs58095302	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59654809	0.83[AFR][1000 genomes]
rs61145486	0.83[AFR][1000 genomes]
rs6791732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830775	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830783	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830795	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7631551	0.95[YRI][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	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:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46223600-46231400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:46225000-46228200	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr3:46225200-46228400	Weak transcription	Fetal Thymus	thymus
4	chr3:46225200-46228800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr3:46225800-46229200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:46226200-46230600	Enhancers	Primary B cells from peripheral blood	blood
7	chr3:46226400-46229400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:46226400-46229400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:46226600-46229200	Weak transcription	NHEK	skin
10	chr3:46226600-46229200	Weak transcription	NHLF	lung
11	chr3:46227000-46228400	Weak transcription	HSMMtube	muscle
12	chr3:46227000-46228400	Weak transcription	NHDF-Ad	bronchial
13	chr3:46227200-46230200	Enhancers	Primary B cells from cord blood	blood
14	chr3:46227400-46229400	Enhancers	Fetal Lung	lung
15	chr3:46227400-46229800	Enhancers	Dnd41	blood
16	chr3:46227800-46228200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:46227800-46229800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr3:46227800-46230000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:46228000-46228200	Enhancers	HSMM	muscle
20	chr3:46228000-46229600	Enhancers	Primary hematopoietic stem cells	blood
21	chr3:46228000-46229600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:46228000-46229600	Flanking Active TSS	GM12878-XiMat	blood

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