Variant report

Variant	rs12666381
Chromosome Location	chr7:3333417-3333418
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 143 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10224159	0.81[CHB][hapmap]
rs10232199	0.86[EUR][1000 genomes]
rs10232765	0.81[CHB][hapmap]
rs10235815	0.81[CHB][hapmap]
rs10239408	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs10240575	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10249955	0.90[EUR][1000 genomes]
rs10249981	0.96[CEU][hapmap];0.80[CHB][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10255825	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10262464	0.81[CHB][hapmap]
rs10263832	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10266085	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10269416	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10270365	0.80[CHB][hapmap]
rs10274465	0.82[CEU][hapmap]
rs10275922	0.89[EUR][1000 genomes]
rs10277545	0.81[CHB][hapmap]
rs10278205	0.81[CHB][hapmap]
rs10281401	0.80[CHB][hapmap]
rs10435012	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10435013	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10435014	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10435102	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10435103	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10435104	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10454314	0.81[CHB][hapmap]
rs10499327	0.80[CHB][hapmap]
rs10807839	0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs10951151	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10951153	0.90[ASN][1000 genomes]
rs10951170	0.81[EUR][1000 genomes]
rs11486822	0.96[ASN][1000 genomes]
rs11761186	0.81[CHB][hapmap]
rs11763250	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11764387	0.81[CHB][hapmap]
rs11766702	0.81[CHB][hapmap]
rs11770681	0.81[CHB][hapmap]
rs11770807	0.81[EUR][1000 genomes]
rs11771359	0.81[CHB][hapmap]
rs11771755	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11773473	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11773479	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11973050	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11979128	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes]
rs11979697	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11979842	0.91[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs11981092	0.81[CHB][hapmap]
rs12532848	0.88[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs12535065	0.88[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs12537420	0.88[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs12667184	0.81[CHB][hapmap]
rs12700766	0.81[ASN][1000 genomes]
rs12700767	0.81[ASN][1000 genomes]
rs12700808	0.86[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12700827	0.81[CHB][hapmap]
rs13240540	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13243372	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1403159	0.80[CHB][hapmap]
rs1404873	0.90[ASN][1000 genomes]
rs1525557	0.88[CHB][hapmap]
rs1525558	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1554497	0.81[CHB][hapmap]
rs1554498	0.81[CHB][hapmap]
rs1554502	0.81[CHB][hapmap]
rs1581564	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17133223	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1818931	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1818932	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1915983	0.81[CHB][hapmap]
rs2056476	0.87[CEU][hapmap]
rs2140114	0.81[CHB][hapmap]
rs28713780	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34170704	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34613896	0.88[EUR][1000 genomes]
rs34825038	0.82[ASN][1000 genomes]
rs35467252	0.80[EUR][1000 genomes]
rs35682547	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4236323	0.88[CHB][hapmap];0.89[JPT][hapmap];0.90[ASN][1000 genomes]
rs4236326	0.81[CHB][hapmap]
rs4286835	0.81[CHB][hapmap]
rs4343998	0.81[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs4380820	0.83[EUR][1000 genomes]
rs4391325	0.81[EUR][1000 genomes]
rs4416733	0.86[CEU][hapmap];0.94[CHB][hapmap];0.83[EUR][1000 genomes]
rs4464862	0.88[ASN][1000 genomes]
rs4493813	0.83[EUR][1000 genomes]
rs4722667	0.90[ASN][1000 genomes]
rs4722679	0.81[CHB][hapmap]
rs4722695	0.88[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs4722705	0.90[CEU][hapmap];0.82[ASN][1000 genomes]
rs4722713	0.80[EUR][1000 genomes]
rs4722714	0.80[EUR][1000 genomes]
rs4722735	0.81[CHB][hapmap]
rs6461984	0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs6462040	0.81[CHB][hapmap]
rs6462068	0.81[CHB][hapmap]
rs6462071	0.81[CHB][hapmap]
rs6946678	0.81[CHB][hapmap]
rs6947525	0.81[CHB][hapmap]
rs6968665	0.81[CHB][hapmap]
rs6978391	0.83[CEU][hapmap];0.81[CHB][hapmap]
rs71531470	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73046607	0.90[ASN][1000 genomes]
rs7457935	0.94[CHB][hapmap]
rs7776539	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7776559	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs7777327	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7780498	0.82[CEU][hapmap];0.81[CHB][hapmap];0.80[EUR][1000 genomes]
rs7781536	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7781694	0.82[ASN][1000 genomes]
rs7783666	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7784497	0.81[CHB][hapmap]
rs7791187	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7793799	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7794409	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7794534	0.81[CHB][hapmap]
rs7794698	0.82[ASN][1000 genomes]
rs7795300	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7795899	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7798141	0.81[CHB][hapmap]
rs7799953	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7800089	0.81[CHB][hapmap]
rs7809446	0.81[CHB][hapmap]
rs939912	0.81[CHB][hapmap]
rs940779	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs940780	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs940781	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9654983	0.88[EUR][1000 genomes]
rs9654984	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9655268	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9655269	0.82[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464264	chr7:3194156-3349625	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv605880	chr7:3194156-3349625	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1023127	chr7:3216344-3466223	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1018173	chr7:3258989-3879848	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv538660	chr7:3258989-3879848	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2758100	chr7:3286625-3560229	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	esv2759500	chr7:3286625-3560229	Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1016555	chr7:3298478-3872512	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv538661	chr7:3298478-3872512	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1019515	chr7:3300048-3479972	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv887324	chr7:3308195-3400105	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	esv1803572	chr7:3327994-3341589	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:3325600-3334400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr7:3333400-3334800	Enhancers	Duodenum Mucosa	Duodenum

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