Variant report

Variant	rs13074192
Chromosome Location	chr3:23360474-23360475
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 135 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:130)

rs_ID	r²[population]
rs1013460	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs1027379	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1032499	0.90[JPT][hapmap]
rs11129113	0.87[ASN][1000 genomes]
rs11129116	0.94[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs11708117	0.84[ASN][1000 genomes]
rs11708176	0.91[ASN][1000 genomes]
rs11715841	0.86[JPT][hapmap]
rs11717397	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11720461	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12330479	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs12493361	0.89[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs12496983	0.91[ASN][1000 genomes]
rs12497974	0.86[ASN][1000 genomes]
rs12629848	0.94[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs13081371	0.82[ASN][1000 genomes]
rs13321359	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs13326048	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs1353322	0.83[YRI][hapmap]
rs1495131	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1498811	0.86[JPT][hapmap]
rs1532355	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1552930	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1692617	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1692651	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs1695171	0.89[CHB][hapmap]
rs1695200	0.81[JPT][hapmap]
rs17012812	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs17012869	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs1874235	0.89[YRI][hapmap];0.84[ASN][1000 genomes]
rs1973400	0.87[ASN][1000 genomes]
rs2055310	0.86[JPT][hapmap]
rs2133331	0.81[JPT][hapmap]
rs2172828	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs2359759	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2359763	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs2884731	0.89[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs3104243	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs3111311	0.86[JPT][hapmap]
rs3817002	0.90[JPT][hapmap]
rs4241511	0.83[ASN][1000 genomes]
rs4241512	0.87[ASN][1000 genomes]
rs4488778	0.86[ASN][1000 genomes]
rs4858062	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs4858064	0.84[ASN][1000 genomes]
rs4858069	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs4858483	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs4858491	0.93[ASN][1000 genomes]
rs4858492	0.92[ASN][1000 genomes]
rs4858496	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs4858497	0.94[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs4858500	0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs4858501	0.88[ASN][1000 genomes]
rs4858502	0.89[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs4858504	0.89[YRI][hapmap];0.89[ASN][1000 genomes]
rs4858505	0.97[YRI][hapmap];0.83[AFR][1000 genomes]
rs4858506	0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4858508	0.84[ASN][1000 genomes]
rs4858509	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6550746	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs6550748	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs6550755	0.89[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs6550756	0.89[CHB][hapmap];0.81[JPT][hapmap];0.80[YRI][hapmap];0.82[ASN][1000 genomes]
rs6769173	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs6776424	0.85[JPT][hapmap]
rs6780723	0.91[JPT][hapmap]
rs6784195	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs6784771	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs6796840	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs6797907	0.85[JPT][hapmap]
rs6798153	0.86[JPT][hapmap]
rs6804123	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs6805889	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6808513	0.82[JPT][hapmap]
rs704533	0.81[JPT][hapmap]
rs716456	0.88[YRI][hapmap];0.81[AFR][1000 genomes]
rs716457	0.89[CHB][hapmap];0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs7429470	0.84[ASN][1000 genomes]
rs7613091	0.95[JPT][hapmap]
rs7617072	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs7630344	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs7631334	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs778459	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs778460	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs778462	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs778468	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs778470	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs778471	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs778480	0.90[JPT][hapmap]
rs778486	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs778494	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs778499	0.82[JPT][hapmap]
rs778500	0.82[JPT][hapmap]
rs778506	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs778508	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs778510	0.86[JPT][hapmap]
rs778514	0.86[JPT][hapmap]
rs778523	0.91[JPT][hapmap]
rs9310715	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs952134	0.86[YRI][hapmap];0.80[AFR][1000 genomes]
rs9809176	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs9816895	0.92[ASN][1000 genomes]
rs9820922	0.81[AFR][1000 genomes]
rs9822422	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs9825778	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs9826089	0.81[ASN][1000 genomes]
rs9826647	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs9826877	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9830388	0.82[JPT][hapmap]
rs9836787	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9839738	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9841123	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9846398	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9847027	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9847958	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9848077	0.94[CHB][hapmap];0.95[JPT][hapmap]
rs9849176	0.89[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs9853489	1.00[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.91[ASN][1000 genomes]
rs9854148	0.86[ASN][1000 genomes]
rs9854590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9859515	0.84[ASN][1000 genomes]
rs9859651	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs9861803	0.87[ASN][1000 genomes]
rs9864908	0.89[CHB][hapmap];0.91[JPT][hapmap]
rs9865602	0.93[ASN][1000 genomes]
rs9873317	0.82[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs9874082	0.89[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9874519	0.80[ASN][1000 genomes]
rs9874822	0.88[ASN][1000 genomes]
rs9881332	0.86[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:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
5	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:23355800-23362800	Weak transcription	Esophagus	oesophagus
7	chr3:23355800-23366000	Weak transcription	Ovary	ovary
8	chr3:23356800-23361400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:23356800-23365400	Weak transcription	Brain Anterior Caudate	brain
10	chr3:23356800-23367600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:23357000-23378800	Weak transcription	Brain Angular Gyrus	brain
12	chr3:23357600-23361200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:23357600-23366600	Weak transcription	Brain Substantia Nigra	brain
14	chr3:23357800-23366000	Weak transcription	HSMM	muscle
15	chr3:23358400-23366400	Weak transcription	HSMMtube	muscle
16	chr3:23358600-23362000	Weak transcription	Psoas Muscle	Psoas
17	chr3:23358600-23362800	Weak transcription	Spleen	Spleen
18	chr3:23358800-23362600	Weak transcription	Brain Hippocampus Middle	brain
19	chr3:23358800-23362800	Weak transcription	Right Ventricle	heart
20	chr3:23359000-23360800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:23359000-23362400	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:23359000-23363000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:23359200-23366000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr3:23359400-23361000	Weak transcription	Fetal Stomach	stomach

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