Variant report

Variant	rs28860229
Chromosome Location	chr1:180733591-180733592
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:180732218..180734311-chr1:180735348..180737674,2	MCF-7	breast:

Extended variants
information (count: 269 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:268)

rs_ID	r²[population]
rs10399718	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10399760	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs10399804	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10399869	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914062	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914063	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914064	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914065	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914068	0.91[AFR][1000 genomes]
rs10914069	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914070	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914071	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914072	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914073	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914081	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914082	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914085	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914087	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914088	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914090	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914091	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914093	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914102	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914119	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914120	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10914121	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11484582	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11484677	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11487433	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12058064	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12058106	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12058871	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12059242	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12059644	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12059678	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12059686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12060123	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12063354	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12063893	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12065537	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12066418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12066422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12067061	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12067633	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12067934	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12068624	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12068720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12069405	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12070064	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12070161	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12070595	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12071498	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12073086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12073140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12073289	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12075235	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12075809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076634	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076875	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076958	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12077123	0.96[AFR][1000 genomes]
rs12077610	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12078050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12078652	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079208	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079213	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12079983	0.87[AFR][1000 genomes]
rs12080210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12080481	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12080611	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12080816	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12080899	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081846	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082250	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082289	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082519	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12082726	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12084318	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12084517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12084841	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087173	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087562	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087806	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088419	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088425	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088430	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088485	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088750	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088908	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089155	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089305	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090165	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090251	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090937	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12091686	0.85[AFR][1000 genomes]
rs12092161	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12092594	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093445	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093826	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12094326	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12095684	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097114	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097443	1.00[AMR][1000 genomes]
rs12097831	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28396858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28772709	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57032990	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57514172	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57581991	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57893270	0.85[AMR][1000 genomes]
rs58078052	0.85[AMR][1000 genomes]
rs58365677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58414267	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58688129	0.85[AMR][1000 genomes]
rs58845755	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58917243	0.85[AMR][1000 genomes]
rs58925572	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58976920	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59013965	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59084656	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59197802	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59543576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59741364	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59921476	0.85[AMR][1000 genomes]
rs59929457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60159602	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60290602	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60396352	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60653579	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60823702	0.85[AMR][1000 genomes]
rs61058506	0.85[AMR][1000 genomes]
rs61530504	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61742073	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425649	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425650	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425651	0.85[AMR][1000 genomes]
rs6425653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425654	0.85[AMR][1000 genomes]
rs6657287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6659121	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6659262	0.85[AMR][1000 genomes]
rs6667050	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6668077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6668578	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6671456	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6671987	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6672886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6672994	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6675596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6679698	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6679725	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6681878	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6682446	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6682537	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6686781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6686881	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6687073	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6688066	0.85[AMR][1000 genomes]
rs6688797	0.85[AMR][1000 genomes]
rs6692456	0.85[AMR][1000 genomes]
rs6692867	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6693045	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6693245	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6694620	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6697358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6698724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6704318	0.85[AMR][1000 genomes]
rs73034723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034733	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034735	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034738	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034820	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034824	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034834	0.85[AMR][1000 genomes]
rs73034843	0.85[AMR][1000 genomes]
rs73034844	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034846	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034849	0.85[AMR][1000 genomes]
rs73034850	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034852	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034855	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034858	0.85[AMR][1000 genomes]
rs73034861	0.85[AMR][1000 genomes]
rs73034864	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034870	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034874	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034877	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034880	0.85[AMR][1000 genomes]
rs73034884	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034888	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034894	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73034895	0.85[AMR][1000 genomes]
rs73036503	0.85[AMR][1000 genomes]
rs73036511	0.85[AMR][1000 genomes]
rs73036513	0.85[AMR][1000 genomes]
rs73036516	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73036523	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73036537	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73036574	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73036576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73040964	0.85[AMR][1000 genomes]
rs73040975	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73040979	0.85[AMR][1000 genomes]
rs73042705	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73042707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73042709	0.85[AMR][1000 genomes]
rs73042714	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73044538	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73044549	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73044553	0.85[AMR][1000 genomes]
rs73044557	0.85[AMR][1000 genomes]
rs73044560	0.85[AMR][1000 genomes]
rs73044573	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045791	0.85[AMR][1000 genomes]
rs73045793	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045794	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045796	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047683	0.85[AMR][1000 genomes]
rs73047693	0.85[AMR][1000 genomes]
rs73049473	0.85[AMR][1000 genomes]
rs73049479	0.85[AMR][1000 genomes]
rs73049489	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049494	0.85[AMR][1000 genomes]
rs73049495	0.85[AMR][1000 genomes]
rs73049502	0.85[AMR][1000 genomes]
rs73051221	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051223	0.85[AMR][1000 genomes]
rs73051228	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051230	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051232	0.85[AMR][1000 genomes]
rs73051245	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051247	0.85[AMR][1000 genomes]
rs73051257	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73051258	0.85[AMR][1000 genomes]
rs7512042	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7513630	0.85[AMR][1000 genomes]
rs7517852	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7522212	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7522604	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7523694	0.85[AMR][1000 genomes]
rs7525801	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7526917	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7527018	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7527074	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7528848	0.85[AMR][1000 genomes]
rs7528955	0.85[AMR][1000 genomes]
rs7531674	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7533479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7533512	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7537396	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7542521	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7545150	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7549787	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7550955	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9730482	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9919230	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9919245	0.89[AFR][1000 genomes];1.00[AMR][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	nsv872578	chr1:180510771-180842344	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180713000-180814200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr1:180713400-180742200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:180714800-180740600	Weak transcription	Primary B cells from cord blood	blood
4	chr1:180715400-180747600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:180721400-180734000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:180722600-180751000	Weak transcription	Left Ventricle	heart
7	chr1:180731800-180742400	Weak transcription	NHLF	lung
8	chr1:180732600-180733600	Weak transcription	Fetal Brain Male	brain
9	chr1:180732600-180740600	Weak transcription	HSMM	muscle

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