Variant report

Variant	rs12492526
Chromosome Location	chr3:179885965-179885966
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10513771	0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10937020	0.87[ASN][1000 genomes]
rs11718127	0.85[ASN][1000 genomes]
rs12487650	0.95[ASN][1000 genomes]
rs12631680	0.87[EUR][1000 genomes]
rs13322790	0.85[ASN][1000 genomes]
rs1357904	0.84[ASN][1000 genomes]
rs1404743	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1464845	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1525276	0.85[ASN][1000 genomes]
rs1568859	0.94[ASN][1000 genomes]
rs1568860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1589858	0.82[ASN][1000 genomes]
rs16831126	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16831219	0.92[ASN][1000 genomes]
rs1852121	0.86[ASN][1000 genomes]
rs1852122	0.82[ASN][1000 genomes]
rs1921676	0.85[ASN][1000 genomes]
rs1950124	0.85[ASN][1000 genomes]
rs2049472	0.85[ASN][1000 genomes]
rs2091273	0.81[ASN][1000 genomes]
rs2177723	0.96[ASN][1000 genomes]
rs2178582	1.00[ASW][hapmap];0.82[GIH][hapmap];1.00[LWK][hapmap];0.86[MEX][hapmap];0.98[MKK][hapmap];0.83[TSI][hapmap]
rs2339967	0.95[ASN][1000 genomes]
rs2339968	0.95[ASN][1000 genomes]
rs28703130	0.87[EUR][1000 genomes]
rs2879654	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28865282	0.96[ASN][1000 genomes]
rs4854901	0.85[ASN][1000 genomes]
rs4854902	0.95[ASN][1000 genomes]
rs4854903	0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4854959	0.84[EUR][1000 genomes]
rs4854961	0.96[ASN][1000 genomes]
rs4854962	0.96[ASN][1000 genomes]
rs4854964	0.85[ASN][1000 genomes]
rs4854966	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56234136	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs58582741	0.81[EUR][1000 genomes]
rs60057308	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60202080	0.87[EUR][1000 genomes]
rs62290558	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62292260	0.85[EUR][1000 genomes]
rs62292283	0.92[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62292284	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62292290	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62292291	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs62292292	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6790229	0.90[ASN][1000 genomes]
rs67979781	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs68014168	0.92[ASN][1000 genomes]
rs7644566	0.95[JPT][hapmap]
rs7652322	0.84[ASN][1000 genomes]
rs9290696	0.95[ASN][1000 genomes]
rs939440	0.95[JPT][hapmap]
rs939441	0.95[JPT][hapmap]
rs939442	0.95[JPT][hapmap]
rs9837718	0.92[ASN][1000 genomes]
rs9840477	0.81[ASN][1000 genomes]
rs9840775	0.81[ASN][1000 genomes]
rs9860526	0.81[ASN][1000 genomes]
rs9863693	0.83[ASN][1000 genomes]
rs9869517	0.86[ASN][1000 genomes]
rs9871928	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9871936	0.81[ASN][1000 genomes]
rs9880357	0.91[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:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179865600-179886800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179883800-179887000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:179884200-179886200	Weak transcription	Pancreas	Pancrea
4	chr3:179885400-179898200	Weak transcription	HMEC	breast

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