Variant report

Variant	rs981441
Chromosome Location	chr20:25657745-25657746
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:25652247..25655467-chr20:25656048..25658706,3	MCF-7	breast:
2	chr20:25650621..25655076-chr20:25655706..25658841,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GINS1-1	chr20:25657572-25658184	ENSG00000213742.2
2	lnc-GINS1-1	chr20:25654488-25658710	ENSG00000213742.2

Variant related genes	Relation type
ENSG00000236542	Chromatin interaction

Extended variants
information (count: 248 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:247)

rs_ID	r²[population]
rs10485776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs1109100	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs1122769	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs12106001	0.85[AMR][1000 genomes]
rs12106173	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs1569617	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs16987786	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs16987789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs16987799	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs16987820	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs16987934	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16988014	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1883528	1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes]
rs1891771	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1936188	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1936190	0.82[EUR][1000 genomes]
rs2006249	0.89[AFR][1000 genomes]
rs2103661	0.85[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2179458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs2387977	0.82[JPT][hapmap]
rs2388026	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs242130	0.90[CHD][hapmap];0.88[ASN][1000 genomes]
rs242133	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2424719	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs2892408	0.95[AFR][1000 genomes]
rs35516971	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs372678	1.00[JPT][hapmap]
rs3764695	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3813916	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs400070	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs402120	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.87[EUR][1000 genomes]
rs409322	0.83[EUR][1000 genomes]
rs409401	0.87[EUR][1000 genomes]
rs4098823	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4098824	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4113658	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4113659	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4113661	0.86[ASN][1000 genomes]
rs4113662	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41308623	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs417110	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs417130	1.00[JPT][hapmap]
rs424487	1.00[JPT][hapmap]
rs426563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[EUR][1000 genomes]
rs428278	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[EUR][1000 genomes]
rs431579	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs4318454	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs433352	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs4343537	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4368405	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs440612	0.89[EUR][1000 genomes]
rs442834	1.00[JPT][hapmap]
rs446649	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs447808	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs449703	1.00[JPT][hapmap]
rs4574179	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4813570	0.89[EUR][1000 genomes]
rs4813579	0.86[ASN][1000 genomes]
rs4815436	0.94[ASW][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs4815445	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4815450	0.86[ASN][1000 genomes]
rs57638633	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58169034	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59324912	0.89[EUR][1000 genomes]
rs59399848	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59546510	0.89[EUR][1000 genomes]
rs6037128	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs6037131	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs6037133	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6037159	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6037161	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6037164	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6037166	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6037167	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6037168	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6037179	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037180	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037192	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6037193	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037195	1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6037196	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6037198	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037199	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037204	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6037205	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6037206	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6037208	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037212	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037217	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037220	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6037222	1.00[CEU][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6037223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60394570	0.94[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs60463280	0.97[ASN][1000 genomes]
rs6050651	0.89[EUR][1000 genomes]
rs6050658	0.89[EUR][1000 genomes]
rs6050663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6050692	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6050707	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050709	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050710	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050712	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050714	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050717	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050720	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050723	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050724	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050725	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050726	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050727	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050729	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050730	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050732	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050733	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6050737	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050743	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050745	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050749	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050751	0.80[ASN][1000 genomes]
rs6050753	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050754	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050755	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050756	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050757	0.84[ASN][1000 genomes]
rs6050758	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050760	0.82[ASN][1000 genomes]
rs6050763	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6050765	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050767	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6050768	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050770	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6050775	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050779	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6050787	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050788	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050789	1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050791	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs6050793	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6050795	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050796	0.90[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6050799	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050801	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6050802	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050804	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050805	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6050807	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6050809	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050813	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6050815	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6050816	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6050825	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6050832	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050833	0.86[ASN][1000 genomes]
rs6050834	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050835	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050838	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050840	0.86[ASN][1000 genomes]
rs6050841	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050846	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050847	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050848	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050851	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050853	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050854	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6050858	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6050867	0.90[CHD][hapmap];1.00[JPT][hapmap]
rs6076372	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6083886	0.83[ASW][hapmap];1.00[CHB][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6083896	1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6083897	0.94[ASW][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6083899	1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6083902	0.86[AFR][1000 genomes]
rs60897995	0.86[EUR][1000 genomes]
rs61052177	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6115200	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs6115214	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6115215	1.00[JPT][hapmap]
rs6115220	0.94[AFR][1000 genomes]
rs6115224	1.00[ASW][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6115232	1.00[JPT][hapmap]
rs6132848	1.00[JPT][hapmap]
rs6132850	0.94[ASW][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.98[MKK][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes]
rs6138588	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs6138600	1.00[JPT][hapmap]
rs6138608	0.92[AFR][1000 genomes]
rs6138612	1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6138613	0.94[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs61494938	0.86[EUR][1000 genomes]
rs66591653	0.89[EUR][1000 genomes]
rs66813885	0.82[EUR][1000 genomes]
rs66983770	0.82[EUR][1000 genomes]
rs67359112	0.89[EUR][1000 genomes]
rs67455519	0.89[EUR][1000 genomes]
rs67482703	0.89[EUR][1000 genomes]
rs67921634	0.89[EUR][1000 genomes]
rs68165049	0.85[EUR][1000 genomes]
rs7261537	0.91[ASN][1000 genomes]
rs7266130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs7266592	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73339360	0.85[ASN][1000 genomes]
rs73339379	0.91[ASN][1000 genomes]
rs73339383	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73339387	0.91[ASN][1000 genomes]
rs73341305	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73341314	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73341328	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73341361	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73341363	0.97[ASN][1000 genomes]
rs73341365	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73341397	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73343217	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73343255	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73343275	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73343292	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73345232	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73345249	0.86[EUR][1000 genomes]
rs73345259	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73345264	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73345278	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73345280	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73345286	0.82[EUR][1000 genomes]
rs7346687	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73597810	0.89[EUR][1000 genomes]
rs73597812	0.89[EUR][1000 genomes]
rs73597813	0.89[EUR][1000 genomes]
rs73597829	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs742435	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs742436	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs8115742	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs8116267	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8116474	0.98[EUR][1000 genomes]
rs8117181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs8120065	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8120594	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8121013	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8121648	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs8122516	0.98[EUR][1000 genomes]
rs8122589	0.93[EUR][1000 genomes]
rs8125002	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8126236	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs84816	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs926486	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs926487	0.83[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs928121	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs9753575	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs981440	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9941769	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912834	chr20:25615272-25756336	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs981441	ZNF337	cis	lung	GTEx
rs981441	ZNF337	cis	Adipose Subcutaneous	GTEx
rs981441	RP4-694B14.5	cis	lung	GTEx
rs981441	GINS1	cis	lymphoblastoid	seeQTL
rs981441	ZNF337	cis	Stomach	GTEx
rs981441	RP4-694B14.5	cis	Stomach	GTEx
rs981441	RP4-694B14.5	cis	Adipose Subcutaneous	GTEx
rs981441	ZNF337	cis	lymphoblastoid	seeQTL
rs981441	ZNF337	cis	Thyroid	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25651600-25659600	Strong transcription	Fetal Brain Female	brain
2	chr20:25652000-25659600	Strong transcription	Brain Germinal Matrix	brain
3	chr20:25652600-25658800	Strong transcription	Fetal Stomach	stomach
4	chr20:25653000-25663600	Strong transcription	HSMM	muscle
5	chr20:25653200-25659600	Strong transcription	Fetal Intestine Small	intestine
6	chr20:25653200-25662800	Strong transcription	Fetal Lung	lung
7	chr20:25653400-25657800	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr20:25653400-25658200	Strong transcription	Duodenum Mucosa	Duodenum
9	chr20:25653400-25658600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr20:25653400-25658800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr20:25653400-25659200	Strong transcription	Primary hematopoietic stem cells	blood
12	chr20:25653400-25659400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
13	chr20:25653400-25659600	Strong transcription	Brain Angular Gyrus	brain
14	chr20:25653400-25659600	Strong transcription	Fetal Muscle Trunk	muscle
15	chr20:25653400-25659600	Strong transcription	Ovary	ovary
16	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Male	skeletal muscle
17	chr20:25653400-25659600	Strong transcription	Skeletal Muscle Female	skeletal muscle
18	chr20:25653400-25661000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr20:25653400-25662400	Strong transcription	Liver	Liver
20	chr20:25653400-25663600	Strong transcription	Dnd41	blood
21	chr20:25653400-25664200	Strong transcription	Stomach Smooth Muscle	stomach
22	chr20:25653600-25657800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr20:25653600-25657800	Strong transcription	NHLF	lung
24	chr20:25653600-25658200	Strong transcription	Primary T helper cells PMA-I stimulated	--
25	chr20:25653600-25658200	Strong transcription	Brain Inferior Temporal Lobe	brain
26	chr20:25653600-25658400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr20:25653600-25658600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr20:25653600-25658800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr20:25653600-25658800	Strong transcription	Rectal Smooth Muscle	rectum
30	chr20:25653600-25659000	Strong transcription	Brain Hippocampus Middle	brain
31	chr20:25653600-25659600	Strong transcription	Primary T cells from cord blood	blood
32	chr20:25653600-25659600	Strong transcription	Fetal Intestine Large	intestine
33	chr20:25653600-25659600	Strong transcription	Fetal Muscle Leg	muscle
34	chr20:25653600-25659600	Strong transcription	Fetal Thymus	thymus
35	chr20:25653600-25659600	Strong transcription	Left Ventricle	heart
36	chr20:25653600-25660000	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr20:25653600-25660200	Strong transcription	Primary B cells from peripheral blood	blood
38	chr20:25653600-25662600	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr20:25653600-25663200	Strong transcription	HepG2	liver
40	chr20:25653800-25657800	Strong transcription	Placenta	Placenta
41	chr20:25653800-25658600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr20:25653800-25659600	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr20:25653800-25659600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr20:25653800-25659600	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr20:25653800-25664200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr20:25654000-25657800	Strong transcription	HUVEC	blood vessel
47	chr20:25654000-25658800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr20:25654000-25659600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr20:25654000-25659600	Strong transcription	Sigmoid Colon	Sigmoid Colon
50	chr20:25654000-25659600	Strong transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links