Variant report

Variant	rs1921676
Chromosome Location	chr3:179860192-179860193
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10222466	0.82[EUR][1000 genomes]
rs10937020	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11709960	0.87[EUR][1000 genomes]
rs11718127	0.99[ASN][1000 genomes]
rs12487650	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12492526	0.85[ASN][1000 genomes]
rs12636328	0.83[EUR][1000 genomes]
rs1404743	0.95[ASN][1000 genomes]
rs1404744	0.93[EUR][1000 genomes]
rs1525277	0.84[EUR][1000 genomes]
rs1568859	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1568860	0.83[ASN][1000 genomes]
rs16831126	0.99[ASN][1000 genomes]
rs16831219	0.83[ASN][1000 genomes]
rs1852121	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1852122	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1915908	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs1950124	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2049472	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2177723	0.88[ASN][1000 genomes]
rs2339967	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2339968	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2879654	0.83[ASN][1000 genomes]
rs28865282	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3849420	0.83[EUR][1000 genomes]
rs4376038	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs4854901	0.99[ASN][1000 genomes]
rs4854902	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4854961	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4854962	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59555202	0.99[EUR][1000 genomes]
rs60057308	0.99[ASN][1000 genomes]
rs62290558	0.99[ASN][1000 genomes]
rs6790229	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6790465	0.82[EUR][1000 genomes]
rs67979781	0.99[ASN][1000 genomes]
rs68014168	0.92[ASN][1000 genomes]
rs6803764	0.96[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7618051	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs7621628	0.82[EUR][1000 genomes]
rs7635210	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7637854	0.82[EUR][1000 genomes]
rs7637930	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7644566	0.91[JPT][hapmap]
rs7652876	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs9290696	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9290697	0.95[CEU][hapmap];0.80[EUR][1000 genomes]
rs939440	0.91[JPT][hapmap]
rs939441	0.90[JPT][hapmap]
rs939442	0.90[JPT][hapmap]
rs9821124	0.85[EUR][1000 genomes]
rs9837718	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9845934	0.95[CEU][hapmap]
rs9851723	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9857420	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9862989	0.80[EUR][1000 genomes]
rs9863693	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9871928	0.99[ASN][1000 genomes]
rs9880357	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179859600-179860600	Enhancers	HMEC	breast
2	chr3:179859600-179861400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:179860000-179860400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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