Variant report

Variant	rs964946
Chromosome Location	chr13:53235900-53235901
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:53225394..53228460-chr13:53233357..53236526,4	MCF-7	breast:
2	chr13:53225208..53228349-chr13:53233022..53236240,3	MCF-7	breast:
3	chr13:53169737..53172275-chr13:53234901..53237385,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165416	Chromatin interaction

Extended variants
information (count: 250 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:237)

rs_ID	r²[population]
rs1036452	1.00[EUR][1000 genomes]
rs11148261	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11148262	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370082	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370083	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436724	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436725	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1436728	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436729	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs186900	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925135	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1978805	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2033680	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2033684	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2033685	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2099547	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2118093	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237106	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408659	1.00[EUR][1000 genomes]
rs2575957	0.87[EUR][1000 genomes]
rs2575958	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2575975	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2760755	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2760774	0.87[ASN][1000 genomes]
rs2760780	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342769	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342772	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342773	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342774	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs342777	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34385713	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35799542	1.00[ASN][1000 genomes]
rs3931491	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3989920	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4261418	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4261419	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4278636	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4539485	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4542538	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4586310	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4884223	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4884240	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885767	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885804	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885827	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885887	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885910	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58007072	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58093707	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58762582	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs596546	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60117820	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs601596	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs602743	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60277273	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs602954	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs603070	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60623593	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61311520	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs615509	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs617660	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958087	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958115	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958120	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958121	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958122	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958123	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958126	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958127	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958131	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958132	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958134	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958135	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958136	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958137	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958138	0.87[ASN][1000 genomes]
rs61958139	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958140	1.00[ASN][1000 genomes]
rs61958141	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61958142	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959576	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959578	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959579	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959591	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959592	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959594	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959595	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959616	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959617	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959618	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959619	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959620	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959653	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959654	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959656	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61959659	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61961160	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs630180	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs630232	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs630892	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs632146	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs632528	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636035	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636509	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636511	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs646144	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs646498	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs646911	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs647377	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561672	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561673	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561674	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561676	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561677	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561678	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561679	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561684	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561685	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561686	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs659247	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs659848	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs662582	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs664827	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs670291	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs676306	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681165	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682343	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs693991	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs694275	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs694846	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs695165	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7319451	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7325840	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7330193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7330361	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7330755	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7335270	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7982285	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7986540	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7986877	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7987162	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7987405	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988145	1.00[EUR][1000 genomes]
rs7991651	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7992165	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7994484	0.82[AMR][1000 genomes]
rs7994651	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7995188	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7996692	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7999466	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8000715	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs893070	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9316581	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9316582	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9316583	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526947	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526948	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526949	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526957	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526958	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526960	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526964	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526966	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526970	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526972	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526973	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526976	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526978	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526986	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526987	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526988	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526991	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526993	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526994	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9526997	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536153	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9536167	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9536168	1.00[EUR][1000 genomes]
rs9536169	0.86[EUR][1000 genomes]
rs9536170	0.90[EUR][1000 genomes]
rs9536171	0.81[EUR][1000 genomes]
rs9536172	0.86[ASN][1000 genomes]
rs9536173	0.86[ASN][1000 genomes]
rs9536175	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536176	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536177	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536179	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536180	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536181	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536182	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536183	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536184	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536187	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536188	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536189	0.91[EUR][1000 genomes]
rs9536192	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536193	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536194	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536195	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536196	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536205	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536206	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536209	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536215	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536216	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536218	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536221	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536222	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536228	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536229	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536232	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536233	0.93[EUR][1000 genomes]
rs9536235	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536237	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536238	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536240	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536241	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536243	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536244	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536246	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536248	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536249	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536250	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536251	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536253	1.00[ASN][1000 genomes]
rs9536255	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536256	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536257	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536260	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536261	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9536264	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568747	1.00[ASN][1000 genomes]
rs9568748	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568752	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9596671	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971513	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs973198	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040931	chr13:52564792-53350914	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv541773	chr13:52564792-53350914	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv820041	chr13:53061338-53280588	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv1044949	chr13:53071140-53289426	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv819201	chr13:53137490-53240330	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1044051	chr13:53139132-53287023	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1038942	chr13:53139132-53289426	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv1039911	chr13:53139132-53303074	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv1037189	chr13:53173013-53287060	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	nsv541775	chr13:53173013-53287060	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv1047265	chr13:53173013-53311419	Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv541776	chr13:53173013-53311419	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
13	nsv530719	chr13:53173014-53675953	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs964946	CKAP2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53227800-53238600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:53227800-53238800	Weak transcription	Esophagus	oesophagus
3	chr13:53227800-53260000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr13:53228000-53251000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr13:53228200-53256400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr13:53228400-53236200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr13:53228400-53236200	Weak transcription	HSMMtube	muscle
8	chr13:53228400-53242000	Weak transcription	Thymus	Thymus
9	chr13:53228400-53254600	Weak transcription	Colonic Mucosa	Colon
10	chr13:53228600-53254600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr13:53228800-53237600	Weak transcription	A549	lung
12	chr13:53228800-53240400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr13:53228800-53243400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr13:53228800-53244200	Strong transcription	HSMM	muscle
15	chr13:53229000-53236200	Weak transcription	Fetal Kidney	kidney
16	chr13:53229000-53276600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr13:53229200-53242800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr13:53229200-53247600	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr13:53229200-53268000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
20	chr13:53229400-53254600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr13:53229600-53242600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr13:53229800-53247600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr13:53229800-53255000	Weak transcription	Spleen	Spleen
24	chr13:53230000-53239400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr13:53230000-53242800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr13:53230200-53240200	Weak transcription	Small Intestine	intestine
27	chr13:53230200-53244800	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr13:53230200-53247200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr13:53230200-53250600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr13:53230200-53263600	Weak transcription	Stomach Mucosa	stomach
31	chr13:53230400-53238600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr13:53230400-53266400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr13:53230600-53236200	Weak transcription	Fetal Brain Male	brain
34	chr13:53230600-53239800	Weak transcription	NHEK	skin
35	chr13:53230600-53245600	Strong transcription	HUVEC	blood vessel
36	chr13:53230600-53266400	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr13:53230800-53238800	Weak transcription	Brain Substantia Nigra	brain
38	chr13:53230800-53243200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr13:53230800-53253800	Weak transcription	Fetal Heart	heart
40	chr13:53230800-53277400	Weak transcription	Gastric	stomach
41	chr13:53231000-53242400	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr13:53231200-53238800	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr13:53231200-53244400	Strong transcription	Dnd41	blood
44	chr13:53231200-53246400	Strong transcription	Primary B cells from peripheral blood	blood
45	chr13:53231200-53262400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr13:53231400-53243000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr13:53231400-53245200	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr13:53231600-53243000	Strong transcription	Skeletal Muscle Female	skeletal muscle
49	chr13:53231600-53245200	Strong transcription	Liver	Liver
50	chr13:53231600-53246400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links