Variant report

Variant	rs1389812
Chromosome Location	chr3:140339749-140339750
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 118 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1009558	0.85[AFR][1000 genomes]
rs13315403	0.81[AFR][1000 genomes]
rs13433760	0.85[YRI][hapmap];0.89[AFR][1000 genomes]
rs13433933	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs13434096	0.89[AFR][1000 genomes]
rs1389813	0.90[YRI][hapmap];0.89[AFR][1000 genomes]
rs1561766	0.85[AFR][1000 genomes]
rs1567642	0.84[AFR][1000 genomes]
rs1696212	0.85[EUR][1000 genomes]
rs17351238	0.90[EUR][1000 genomes]
rs1827168	0.89[AFR][1000 genomes]
rs1827169	0.89[AFR][1000 genomes]
rs2165583	0.85[AFR][1000 genomes]
rs28569452	0.89[AFR][1000 genomes]
rs28803908	0.87[AFR][1000 genomes]
rs35038121	0.91[EUR][1000 genomes]
rs55726121	0.84[EUR][1000 genomes]
rs56287987	0.89[AFR][1000 genomes]
rs57787093	0.81[AFR][1000 genomes]
rs58002592	0.89[AFR][1000 genomes]
rs58008037	0.85[EUR][1000 genomes]
rs58071968	0.85[AFR][1000 genomes]
rs58294993	0.89[AFR][1000 genomes]
rs58741993	0.89[EUR][1000 genomes]
rs59844814	0.81[AFR][1000 genomes]
rs60240007	0.81[AFR][1000 genomes]
rs61598941	0.83[AFR][1000 genomes]
rs61673653	0.83[AFR][1000 genomes]
rs6439937	0.89[AFR][1000 genomes]
rs6439940	0.83[EUR][1000 genomes]
rs6439941	0.84[EUR][1000 genomes]
rs6439942	0.84[EUR][1000 genomes]
rs6763286	0.89[AFR][1000 genomes]
rs6766452	0.89[AFR][1000 genomes]
rs6773423	0.89[AFR][1000 genomes]
rs6780472	0.84[EUR][1000 genomes]
rs6784484	0.84[EUR][1000 genomes]
rs6790926	0.89[AFR][1000 genomes]
rs6798040	0.84[EUR][1000 genomes]
rs6798999	0.89[AFR][1000 genomes]
rs6803694	0.89[AFR][1000 genomes]
rs6807178	0.89[EUR][1000 genomes]
rs6808213	0.91[EUR][1000 genomes]
rs698674	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs72977014	0.99[EUR][1000 genomes]
rs72977046	0.84[EUR][1000 genomes]
rs72977051	0.84[EUR][1000 genomes]
rs72977054	0.84[EUR][1000 genomes]
rs72977058	0.81[EUR][1000 genomes]
rs72977066	0.84[EUR][1000 genomes]
rs72977068	0.84[EUR][1000 genomes]
rs72977071	0.84[EUR][1000 genomes]
rs72977074	0.84[EUR][1000 genomes]
rs72977076	0.83[EUR][1000 genomes]
rs72977077	0.84[EUR][1000 genomes]
rs72979237	0.82[AFR][1000 genomes]
rs72979242	0.82[AFR][1000 genomes]
rs72979243	0.85[AFR][1000 genomes]
rs72979250	0.89[AFR][1000 genomes]
rs72979253	0.89[AFR][1000 genomes]
rs72981959	0.85[AFR][1000 genomes]
rs7430829	0.85[AFR][1000 genomes]
rs7432960	0.85[AFR][1000 genomes]
rs7612862	0.84[EUR][1000 genomes]
rs7613608	0.84[EUR][1000 genomes]
rs7617160	0.99[EUR][1000 genomes]
rs7622801	0.84[EUR][1000 genomes]
rs7622894	0.84[EUR][1000 genomes]
rs7635537	0.84[EUR][1000 genomes]
rs7639139	0.87[AFR][1000 genomes]
rs7645011	0.84[EUR][1000 genomes]
rs7645261	0.84[EUR][1000 genomes]
rs7645465	0.84[EUR][1000 genomes]
rs7651804	0.89[AFR][1000 genomes]
rs837662	0.84[EUR][1000 genomes]
rs9289605	0.89[AFR][1000 genomes]
rs9289606	0.89[AFR][1000 genomes]
rs9808968	0.89[AFR][1000 genomes]
rs9813212	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs9813825	0.90[YRI][hapmap];0.89[AFR][1000 genomes]
rs9822864	0.89[AFR][1000 genomes]
rs9823422	0.88[AFR][1000 genomes]
rs9827955	0.89[AFR][1000 genomes]
rs9828653	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs9828789	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs9830692	0.89[AFR][1000 genomes]
rs9830840	0.89[AFR][1000 genomes]
rs9840918	0.88[AFR][1000 genomes]
rs9841078	0.88[AFR][1000 genomes]
rs9843928	0.85[AFR][1000 genomes]
rs9844923	0.85[AFR][1000 genomes]
rs9844924	0.85[AFR][1000 genomes]
rs9865529	0.81[AFR][1000 genomes]
rs9865940	0.89[AFR][1000 genomes]
rs9868284	0.89[AFR][1000 genomes]
rs9869402	0.89[AFR][1000 genomes]
rs9870785	0.85[AFR][1000 genomes]
rs9877773	0.87[AFR][1000 genomes]
rs9879403	0.89[AFR][1000 genomes]
rs9879413	0.89[AFR][1000 genomes]
rs9880582	0.89[AFR][1000 genomes]
rs9882754	0.88[AFR][1000 genomes]
rs9883053	0.89[AFR][1000 genomes]
rs9883273	0.89[AFR][1000 genomes]
rs9883666	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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
10	nsv460869	chr3:140330108-140450655	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv591864	chr3:140330108-140450655	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv818170	chr3:140330108-140454836	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv829742	chr3:140334045-140357105	Enhancers Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140336000-140346800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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