Variant report

Variant	rs11129116
Chromosome Location	chr3:23354426-23354427
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 141 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs1013460	1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1027379	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1032499	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs11129113	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11708117	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11708176	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11715841	0.82[JPT][hapmap]
rs11717397	0.91[ASN][1000 genomes]
rs11720461	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11920019	0.86[EUR][1000 genomes]
rs12330262	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12330479	0.88[CHB][hapmap];0.84[JPT][hapmap]
rs12493361	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496983	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12497974	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12629848	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12715047	0.85[ASN][1000 genomes]
rs13074192	0.94[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs13080261	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13080401	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13081371	0.83[ASN][1000 genomes]
rs13321359	0.94[CHB][hapmap];0.83[ASN][1000 genomes]
rs13326048	0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1495131	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1498811	0.83[JPT][hapmap]
rs1532355	0.97[ASN][1000 genomes]
rs1552930	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1692617	0.94[CHB][hapmap];0.81[JPT][hapmap]
rs1692651	0.95[CHB][hapmap]
rs1695171	0.95[CHB][hapmap]
rs1695181	0.81[ASN][1000 genomes]
rs17012812	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17012869	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1874235	0.94[ASN][1000 genomes]
rs1973400	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2055310	0.81[JPT][hapmap]
rs2172828	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs2359759	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs2359763	0.95[CHB][hapmap]
rs3104243	0.94[CHB][hapmap]
rs3111311	0.81[JPT][hapmap]
rs34919006	0.86[ASN][1000 genomes]
rs3817002	0.86[JPT][hapmap]
rs4241511	1.00[CEU][hapmap];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4241512	0.87[ASN][1000 genomes]
rs4488778	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4858062	0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs4858064	0.83[ASN][1000 genomes]
rs4858071	0.88[ASN][1000 genomes]
rs4858072	0.88[ASN][1000 genomes]
rs4858077	0.84[ASN][1000 genomes]
rs4858483	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4858484	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4858491	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4858492	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4858496	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4858497	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4858500	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858501	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858502	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4858504	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4858506	0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4858508	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4858509	0.86[ASN][1000 genomes]
rs4858511	0.88[ASN][1000 genomes]
rs59429714	0.89[ASN][1000 genomes]
rs6550746	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6550748	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6550755	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs6550756	0.94[CHB][hapmap];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6769173	0.94[CHB][hapmap];0.86[ASN][1000 genomes]
rs6780723	0.87[JPT][hapmap]
rs6784195	0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6784771	0.83[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs6795492	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6796840	0.94[CHB][hapmap];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6798153	0.81[JPT][hapmap]
rs6804123	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6805889	0.90[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs716457	0.95[CHB][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7429470	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7613091	0.90[JPT][hapmap]
rs7617072	0.83[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7622784	0.88[ASN][1000 genomes]
rs7631334	0.94[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs778459	0.95[CHB][hapmap]
rs778460	0.95[CHB][hapmap]
rs778462	0.94[CHB][hapmap]
rs778468	0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs778470	0.95[CHB][hapmap]
rs778471	0.95[CHB][hapmap]
rs778480	0.85[JPT][hapmap]
rs778484	0.80[ASN][1000 genomes]
rs778485	0.82[ASN][1000 genomes]
rs778486	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs778487	0.80[ASN][1000 genomes]
rs778488	0.82[ASN][1000 genomes]
rs778494	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs778506	0.94[CHB][hapmap];0.80[ASN][1000 genomes]
rs778508	0.84[CHB][hapmap]
rs778510	0.83[JPT][hapmap]
rs778514	0.83[JPT][hapmap]
rs778523	0.87[JPT][hapmap]
rs9310715	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9809176	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9816895	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9821101	0.91[EUR][1000 genomes]
rs9822422	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9825778	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9826089	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9826647	0.95[CHB][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9826877	0.94[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9836787	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9839738	0.90[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9840820	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9841123	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes]
rs9841944	0.88[ASN][1000 genomes]
rs9846398	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9847027	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9847958	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9848077	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs9849176	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9849424	0.87[ASN][1000 genomes]
rs9853489	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9854148	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9854590	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9859515	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9859651	0.94[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9861803	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9864908	0.81[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs9865602	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9873317	0.88[CHB][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9874082	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9874519	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9874822	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881332	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23337600-23358400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr3:23343800-23355200	Weak transcription	Aorta	Aorta
3	chr3:23344600-23356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:23345800-23356400	Weak transcription	NHDF-Ad	bronchial
5	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
6	chr3:23347000-23356400	Weak transcription	Adipose Nuclei	Adipose
7	chr3:23347000-23357200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:23348200-23356600	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:23349200-23357800	Weak transcription	Lung	lung
10	chr3:23349400-23356400	Weak transcription	Primary T cells from cord blood	blood
11	chr3:23349800-23355600	Weak transcription	Thymus	Thymus
12	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:23350800-23356600	Weak transcription	Psoas Muscle	Psoas
14	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:23353400-23358400	Enhancers	HSMMtube	muscle
17	chr3:23353600-23355000	Weak transcription	Ovary	ovary
18	chr3:23353600-23357800	Enhancers	HSMM	muscle
19	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
20	chr3:23354000-23355000	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr3:23354000-23355200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:23354000-23357600	Enhancers	Muscle Satellite Cultured Cells	--
23	chr3:23354200-23356000	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr3:23354200-23357000	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:23354400-23355000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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