Variant report

Variant	rs28569452
Chromosome Location	chr3:140329435-140329436
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:140328498..140333077-chr3:140333423..140336140,4	MCF-7	breast:

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1009558	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13315403	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13316563	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13433760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13433933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13434096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1389812	0.89[AFR][1000 genomes]
rs1389813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1561766	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1567642	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1827168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1827169	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2119726	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2165583	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28567961	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28803908	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56287987	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57787093	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58002592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58071968	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58294993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59844814	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60240007	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs60887734	1.00[AMR][1000 genomes]
rs61598941	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61673653	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6439937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6763286	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6766452	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6773423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6790926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6798999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6803694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6806640	1.00[AMR][1000 genomes]
rs72979237	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979242	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979243	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72981933	1.00[AMR][1000 genomes]
rs72981959	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7430829	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7432960	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7627138	1.00[AMR][1000 genomes]
rs7639139	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7649377	1.00[AMR][1000 genomes]
rs7651804	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9289605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9289606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9808968	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9813212	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9813825	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9822864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9822897	0.83[AFR][1000 genomes]
rs9823422	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9827955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9830692	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9830840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834822	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9840918	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841078	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9843928	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9844923	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9844924	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9857931	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9865529	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs9865940	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9868284	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9869402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9870785	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9872697	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9877773	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9880582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9882754	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883666	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv870185	chr3:140265153-140395673	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv877546	chr3:140299603-140468370	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv997694	chr3:140324012-140464786	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1008123	chr3:140328825-140464786	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140329200-140330000	Enhancers	NH-A	brain
2	chr3:140329200-140331000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:140329400-140329800	Enhancers	Osteobl	bone
4	chr3:140329400-140330000	Enhancers	Muscle Satellite Cultured Cells	--

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