Variant report

Variant	rs3943277
Chromosome Location	chr3:140084789-140084790
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	chr3:140077666..140079764-chr3:140083559..140086376,4	MCF-7	breast:
2	chr3:140083102..140085240-chr3:140088764..140091078,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1026773	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1026774	0.88[EUR][1000 genomes]
rs1026775	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1026776	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1026777	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1026778	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1026779	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11706485	0.89[ASN][1000 genomes]
rs11707077	0.86[EUR][1000 genomes]
rs11714825	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11714842	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11715839	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11716346	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11717522	1.00[JPT][hapmap]
rs11719018	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11719055	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11719890	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11917245	1.00[JPT][hapmap]
rs13099847	0.94[CHB][hapmap];0.80[EUR][1000 genomes]
rs13319247	0.92[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1383020	1.00[JPT][hapmap]
rs1479866	1.00[JPT][hapmap]
rs1564395	1.00[JPT][hapmap]
rs1564397	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs2061927	1.00[JPT][hapmap]
rs2061929	1.00[JPT][hapmap]
rs2086330	1.00[JPT][hapmap]
rs4076964	1.00[JPT][hapmap]
rs4362682	1.00[JPT][hapmap]
rs4365587	1.00[JPT][hapmap]
rs4371479	1.00[JPT][hapmap]
rs4410413	0.94[CHB][hapmap]
rs4438621	1.00[JPT][hapmap]
rs4518083	1.00[JPT][hapmap]
rs4583599	1.00[JPT][hapmap]
rs4642081	0.94[CHB][hapmap]
rs4683484	1.00[JPT][hapmap]
rs4683488	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs6765087	1.00[JPT][hapmap]
rs6766533	0.80[CEU][hapmap]
rs6770286	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6770610	0.85[EUR][1000 genomes]
rs6777920	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6786368	0.81[CHB][hapmap]
rs6789020	0.82[EUR][1000 genomes]
rs6790930	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6794692	0.86[EUR][1000 genomes]
rs6794805	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6795544	0.85[EUR][1000 genomes]
rs6795632	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7431715	1.00[JPT][hapmap]
rs7610675	0.81[CEU][hapmap]
rs7618673	0.94[CHB][hapmap];0.80[EUR][1000 genomes]
rs7623769	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7653676	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs899622	0.87[CHB][hapmap]
rs9811609	1.00[JPT][hapmap]
rs9814193	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9817769	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9837886	0.83[EUR][1000 genomes]
rs9838521	0.82[EUR][1000 genomes]
rs9871764	0.80[CEU][hapmap];1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs9874598	0.88[EUR][1000 genomes]
rs995578	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 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	nsv829740	chr3:139925767-140106169	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	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
5	nsv460867	chr3:140007294-140180563	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv591861	chr3:140007294-140180563	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	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
8	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
9	nsv818169	chr3:140014763-140182046	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv1001430	chr3:140016999-140186498	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv998953	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv536731	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv829741	chr3:140021063-140183294	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1004500	chr3:140021594-140189148	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140061800-140084800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:140073800-140085000	Weak transcription	HSMMtube	muscle
3	chr3:140083000-140087400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:140083200-140084800	Weak transcription	Left Ventricle	heart
5	chr3:140083200-140085000	Weak transcription	Fetal Heart	heart
6	chr3:140084400-140085800	Enhancers	Ovary	ovary
7	chr3:140084600-140086000	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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