Variant report

Variant	rs2253116
Chromosome Location	chr15:52228871-52228872
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52223859..52226689-chr15:52228375..52231305,2	K562	blood:
2	chr15:52228460..52229964-chr15:52263392..52265550,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-3	chr15:52228827-52229251	NONHSAT043893

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction
ENSG00000166477	Chromatin interaction

Extended variants
information (count: 316 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:313)

rs_ID	r²[population]
rs1025184	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1035737	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs1035739	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10444798	0.83[ASN][1000 genomes]
rs10444823	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs10444824	0.85[EUR][1000 genomes]
rs10444825	0.84[EUR][1000 genomes]
rs10775145	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.85[ASN][1000 genomes]
rs10851503	0.94[EUR][1000 genomes]
rs10851504	0.90[EUR][1000 genomes]
rs11049	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11070868	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes]
rs11070869	0.85[EUR][1000 genomes]
rs1135871	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11630084	0.95[CHB][hapmap]
rs11630253	0.98[EUR][1000 genomes]
rs11630579	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11630943	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes]
rs11631858	0.84[EUR][1000 genomes]
rs11636345	0.95[CHB][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[ASN][1000 genomes]
rs11636869	0.88[EUR][1000 genomes]
rs11637876	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs11638161	0.85[ASN][1000 genomes]
rs11638677	0.97[EUR][1000 genomes]
rs11638820	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap]
rs12050524	0.84[EUR][1000 genomes]
rs12438686	0.91[CHB][hapmap];0.88[ASN][1000 genomes]
rs12591672	0.97[EUR][1000 genomes]
rs12593708	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs12901638	0.90[EUR][1000 genomes]
rs12902346	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12903707	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.87[ASN][1000 genomes]
rs12904413	0.85[EUR][1000 genomes]
rs12904900	0.85[EUR][1000 genomes]
rs12905283	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12908327	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes]
rs12912928	0.88[EUR][1000 genomes]
rs12913583	0.87[EUR][1000 genomes]
rs12913850	0.94[EUR][1000 genomes]
rs12915015	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs12915568	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs12917133	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.81[ASN][1000 genomes]
rs1350174	0.82[CHB][hapmap];0.82[GIH][hapmap];0.87[MEX][hapmap];0.85[TSI][hapmap]
rs1545602	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs17526463	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs17526760	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes]
rs17539905	0.98[EUR][1000 genomes]
rs17610862	0.85[EUR][1000 genomes]
rs17611193	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs17612102	0.93[EUR][1000 genomes]
rs17612123	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17705732	0.95[CHB][hapmap];0.98[CHD][hapmap];0.89[ASN][1000 genomes]
rs1811326	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1840708	1.00[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs1863430	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1867984	1.00[CHB][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1895863	0.93[ASN][1000 genomes]
rs1972689	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1991267	0.85[CEU][hapmap]
rs2006772	0.84[AMR][1000 genomes]
rs2006773	0.81[CHB][hapmap];0.81[YRI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2007335	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2007355	0.96[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.94[EUR][1000 genomes]
rs2009972	0.89[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap];0.80[MEX][hapmap];0.91[TSI][hapmap];0.84[ASN][1000 genomes]
rs2010026	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs2011995	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs2014638	0.82[CHB][hapmap];0.88[GIH][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes]
rs2034856	1.00[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes]
rs2034857	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];0.89[TSI][hapmap];0.83[ASN][1000 genomes]
rs2034858	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.92[MEX][hapmap];0.91[TSI][hapmap];0.83[ASN][1000 genomes]
rs2052705	1.00[CEU][hapmap];0.81[CHB][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2052706	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2052708	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2052709	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2114191	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs2241503	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2251135	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2252606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2252831	0.89[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2258248	0.85[CEU][hapmap]
rs2264339	1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2303443	0.81[CHD][hapmap];0.91[GIH][hapmap];0.89[TSI][hapmap]
rs2414119	0.89[ASN][1000 genomes]
rs2414122	0.84[CEU][hapmap];0.93[GIH][hapmap];0.97[EUR][1000 genomes]
rs2433217	1.00[CEU][hapmap];0.92[GIH][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes]
rs2433220	0.81[EUR][1000 genomes]
rs2433221	0.96[CEU][hapmap];0.93[GIH][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs2433222	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2436655	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2436656	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs2436657	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2436658	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2436660	1.00[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.98[EUR][1000 genomes]
rs2436661	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2436662	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2441780	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2448946	1.00[CEU][hapmap];0.93[GIH][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes]
rs2448947	0.97[EUR][1000 genomes]
rs2448948	0.98[EUR][1000 genomes]
rs2448949	0.94[EUR][1000 genomes]
rs2448950	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2448951	0.98[EUR][1000 genomes]
rs2448953	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2470590	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2470591	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2470600	0.98[EUR][1000 genomes]
rs2470601	0.97[EUR][1000 genomes]
rs2470602	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2470603	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2470604	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2470605	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2470607	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2470608	0.98[EUR][1000 genomes]
rs2470610	0.97[EUR][1000 genomes]
rs2470611	0.98[EUR][1000 genomes]
rs2470612	1.00[CEU][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes]
rs2470616	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2470617	0.89[ASW][hapmap];0.96[CEU][hapmap];0.85[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.86[MKK][hapmap];0.88[TSI][hapmap]
rs2470618	0.95[EUR][1000 genomes]
rs2470619	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2554305	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554306	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554307	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554308	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2554314	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2554315	0.91[CHB][hapmap];0.93[CHD][hapmap];0.86[ASN][1000 genomes]
rs2554322	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2554327	1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2554328	0.94[EUR][1000 genomes]
rs2554332	0.81[CHB][hapmap];0.84[AMR][1000 genomes]
rs2554334	0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2554336	0.88[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.89[TSI][hapmap];0.89[YRI][hapmap];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2554337	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2554342	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554345	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2554348	0.92[CEU][hapmap];0.86[YRI][hapmap];0.82[EUR][1000 genomes]
rs2554349	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554350	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2554353	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2570224	0.82[ASW][hapmap];0.90[GIH][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes]
rs2570228	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2570231	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2570233	1.00[CHB][hapmap];0.82[YRI][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2570235	0.82[AMR][1000 genomes]
rs2570236	0.81[AMR][1000 genomes]
rs2570237	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2570238	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2570239	0.88[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2570240	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2570241	0.94[ASW][hapmap];1.00[CEU][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2570248	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2570251	0.84[AMR][1000 genomes]
rs2570252	0.81[CHB][hapmap];0.84[AMR][1000 genomes]
rs2570253	0.82[CHB][hapmap];0.84[AMR][1000 genomes]
rs2570258	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2570260	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2570263	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2570268	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2570269	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2570271	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2570275	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593167	0.81[ASN][1000 genomes]
rs2593168	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2593170	0.89[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2593173	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593177	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2593179	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2593181	0.85[CEU][hapmap]
rs2593182	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2593183	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2593185	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2593187	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2593188	0.94[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2593191	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2593194	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2593198	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593199	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2593202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2593204	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2623243	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623244	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623254	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2623255	0.88[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2623259	0.81[CHB][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes]
rs2623262	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2623266	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623271	1.00[CEU][hapmap];0.82[CHB][hapmap];0.98[GIH][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2623279	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623281	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2623282	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[YRI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2623284	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623285	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2623286	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2623288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623289	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2912186	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2912187	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2912188	0.97[EUR][1000 genomes]
rs2912189	1.00[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes]
rs2912190	0.84[EUR][1000 genomes]
rs2916169	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2916170	0.94[EUR][1000 genomes]
rs2916171	0.94[EUR][1000 genomes]
rs2916172	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2916175	0.95[EUR][1000 genomes]
rs2916176	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.95[EUR][1000 genomes]
rs2916177	1.00[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.98[EUR][1000 genomes]
rs2921951	0.96[EUR][1000 genomes]
rs2921953	0.96[EUR][1000 genomes]
rs2921957	0.87[EUR][1000 genomes]
rs2929422	0.97[EUR][1000 genomes]
rs2929423	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs2929424	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2929425	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2929426	1.00[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2929428	0.98[EUR][1000 genomes]
rs2959285	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs2959289	0.95[EUR][1000 genomes]
rs2959291	0.97[EUR][1000 genomes]
rs2959292	0.97[EUR][1000 genomes]
rs2959293	0.96[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2959296	0.84[CEU][hapmap]
rs2959298	1.00[CEU][hapmap];0.90[GIH][hapmap];0.98[TSI][hapmap];0.97[EUR][1000 genomes]
rs2959299	1.00[CEU][hapmap];0.98[GIH][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs2959300	0.96[EUR][1000 genomes]
rs2959302	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2959304	0.90[EUR][1000 genomes]
rs2959305	0.95[EUR][1000 genomes]
rs2959306	0.97[EUR][1000 genomes]
rs2959307	0.96[EUR][1000 genomes]
rs3110551	0.90[EUR][1000 genomes]
rs3110553	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34504520	0.85[EUR][1000 genomes]
rs34842090	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35270232	0.87[EUR][1000 genomes]
rs35823585	0.87[EUR][1000 genomes]
rs36087956	0.97[EUR][1000 genomes]
rs3751596	0.95[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.87[ASN][1000 genomes]
rs3794532	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3794534	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs3794535	1.00[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.91[TSI][hapmap];0.88[ASN][1000 genomes]
rs3794536	0.89[ASN][1000 genomes]
rs4238383	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap]
rs4365237	0.81[EUR][1000 genomes]
rs4774602	0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[ASN][1000 genomes]
rs4775978	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs4775982	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs4775983	1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.88[ASN][1000 genomes]
rs55843525	0.82[ASN][1000 genomes]
rs56148956	0.85[EUR][1000 genomes]
rs56185947	0.85[EUR][1000 genomes]
rs58758283	0.89[ASN][1000 genomes]
rs60329909	0.88[ASN][1000 genomes]
rs62015190	0.94[EUR][1000 genomes]
rs62016192	0.97[EUR][1000 genomes]
rs6493519	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs6493520	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs6493521	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs6493522	0.88[ASN][1000 genomes]
rs6493523	1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6493525	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.88[EUR][1000 genomes]
rs6493526	1.00[CEU][hapmap];0.93[GIH][hapmap];0.98[TSI][hapmap];0.89[EUR][1000 genomes]
rs689884	0.95[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.96[MEX][hapmap];0.87[TSI][hapmap]
rs689922	0.81[ASN][1000 genomes]
rs690287	0.83[ASN][1000 genomes]
rs690638	0.91[CHB][hapmap];0.91[CHD][hapmap];0.83[ASN][1000 genomes]
rs7162554	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7162925	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs7163541	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7164961	0.85[EUR][1000 genomes]
rs7165283	0.95[CHB][hapmap]
rs7165585	0.82[CHB][hapmap];0.87[MEX][hapmap];0.85[TSI][hapmap]
rs7170091	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs7170910	0.90[EUR][1000 genomes]
rs7171459	0.88[ASN][1000 genomes]
rs7171516	0.85[EUR][1000 genomes]
rs7171796	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7174497	1.00[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs7174808	1.00[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs7175017	0.81[EUR][1000 genomes]
rs7176421	0.93[ASN][1000 genomes]
rs7178166	0.81[EUR][1000 genomes]
rs7178561	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[EUR][1000 genomes]
rs7178776	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7178940	0.86[EUR][1000 genomes]
rs7179599	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7181540	1.00[CEU][hapmap]
rs7181553	0.95[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.85[TSI][hapmap]
rs726158	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs72732914	0.95[EUR][1000 genomes]
rs72732952	0.92[ASN][1000 genomes]
rs8024081	0.83[ASN][1000 genomes]
rs8024088	0.83[ASN][1000 genomes]
rs8024585	0.88[EUR][1000 genomes]
rs8024589	0.83[ASN][1000 genomes]
rs8025069	0.81[EUR][1000 genomes]
rs8026521	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8027721	0.80[EUR][1000 genomes]
rs8028486	0.87[EUR][1000 genomes]
rs8028890	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs8028922	1.00[CEU][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes]
rs8029036	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8033433	0.89[EUR][1000 genomes]
rs8035126	0.90[EUR][1000 genomes]
rs8038344	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs8040975	0.81[EUR][1000 genomes]
rs8040991	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8041268	0.88[ASN][1000 genomes]
rs919059	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9635308	0.91[CHB][hapmap];0.81[ASN][1000 genomes]
rs990665	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9944235	1.00[CEU][hapmap];0.85[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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2830255	chr15:52133914-52274863	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1053788	chr15:52223389-52307138	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2253116	SCG3	cis	Frontal Cortex	GTEx
rs2253116	SCG3	cis	Cerebellum	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52179600-52259800	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:52193400-52232800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:52193600-52233600	Weak transcription	Fetal Brain Male	brain
4	chr15:52194200-52231600	Weak transcription	Psoas Muscle	Psoas
5	chr15:52194400-52236800	Weak transcription	Fetal Kidney	kidney
6	chr15:52194400-52239000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:52196200-52234000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr15:52197000-52234200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr15:52197000-52234800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:52200400-52262200	Weak transcription	Stomach Mucosa	stomach
11	chr15:52201000-52238800	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr15:52202000-52230000	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr15:52204800-52238800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr15:52210000-52233600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr15:52210000-52239000	Weak transcription	Colon Smooth Muscle	Colon
16	chr15:52211200-52230400	Weak transcription	K562	blood
17	chr15:52211600-52237600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr15:52211600-52239200	Weak transcription	Right Ventricle	heart
19	chr15:52212400-52241600	Weak transcription	Small Intestine	intestine
20	chr15:52215200-52234000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr15:52216000-52229600	Weak transcription	Colonic Mucosa	Colon
22	chr15:52216000-52238600	Weak transcription	Pancreas	Pancrea
23	chr15:52216400-52229600	Weak transcription	HSMMtube	muscle
24	chr15:52216400-52234200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:52217000-52231600	Weak transcription	Brain Hippocampus Middle	brain
26	chr15:52217200-52231600	Weak transcription	Brain Substantia Nigra	brain
27	chr15:52217200-52238400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr15:52217200-52238800	Weak transcription	Brain Angular Gyrus	brain
29	chr15:52217600-52234200	Weak transcription	NHLF	lung
30	chr15:52217600-52238800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr15:52217800-52237400	Weak transcription	Aorta	Aorta
32	chr15:52217800-52237400	Weak transcription	Brain Anterior Caudate	brain
33	chr15:52217800-52239000	Weak transcription	Gastric	stomach
34	chr15:52218000-52243200	Weak transcription	Fetal Heart	heart
35	chr15:52218200-52234200	Weak transcription	Esophagus	oesophagus
36	chr15:52219400-52230400	Weak transcription	Placenta	Placenta
37	chr15:52221600-52233600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr15:52222600-52259800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr15:52222800-52236200	Strong transcription	Fetal Stomach	stomach
40	chr15:52223000-52233400	Weak transcription	HSMM	muscle
41	chr15:52223200-52232000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr15:52223200-52245400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr15:52223400-52230000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr15:52223400-52234200	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:52224000-52237400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr15:52224200-52229600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr15:52224200-52233400	Weak transcription	NHDF-Ad	bronchial
48	chr15:52224200-52237200	Weak transcription	Brain Cingulate Gyrus	brain
49	chr15:52224600-52229600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr15:52225000-52232400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

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