Variant report

Variant	rs60057308
Chromosome Location	chr3:179854469-179854470
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10937020	0.92[ASN][1000 genomes]
rs11718127	1.00[ASN][1000 genomes]
rs12487650	0.81[ASN][1000 genomes]
rs12492526	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12631680	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12633907	0.81[AMR][1000 genomes]
rs1404743	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1568860	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16831126	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831219	0.84[ASN][1000 genomes]
rs1852121	0.93[ASN][1000 genomes]
rs1852122	0.89[ASN][1000 genomes]
rs1921676	0.99[ASN][1000 genomes]
rs1950124	0.99[ASN][1000 genomes]
rs2049472	0.99[ASN][1000 genomes]
rs2177723	0.89[ASN][1000 genomes]
rs2339967	0.81[ASN][1000 genomes]
rs2339968	0.81[ASN][1000 genomes]
rs28703130	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2879654	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28865282	0.83[ASN][1000 genomes]
rs4854901	1.00[ASN][1000 genomes]
rs4854902	0.81[ASN][1000 genomes]
rs4854959	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4854961	0.83[ASN][1000 genomes]
rs4854962	0.83[ASN][1000 genomes]
rs58582741	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60202080	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62290558	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62292260	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67979781	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68014168	0.92[ASN][1000 genomes]
rs7637930	0.82[ASN][1000 genomes]
rs9290696	0.81[ASN][1000 genomes]
rs9863693	0.98[ASN][1000 genomes]
rs9871928	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][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	chr3:179848600-179859600	Weak transcription	HMEC	breast
2	chr3:179851200-179854600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:179853800-179859800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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