Variant report

Variant	rs9875359
Chromosome Location	chr3:82104496-82104497
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs11127754	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11127757	0.95[EUR][1000 genomes]
rs11127758	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11916839	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11917041	0.85[ASN][1000 genomes]
rs11917347	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11918223	0.95[EUR][1000 genomes]
rs11919912	0.83[EUR][1000 genomes]
rs11922298	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11929553	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12630225	0.84[EUR][1000 genomes]
rs13059531	0.84[EUR][1000 genomes]
rs13088518	0.87[EUR][1000 genomes]
rs13314987	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13321907	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13434355	0.85[ASN][1000 genomes]
rs1534668	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17019551	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1919559	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1919565	0.85[ASN][1000 genomes]
rs1919566	0.85[ASN][1000 genomes]
rs2068210	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2068211	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2141489	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2178315	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2178316	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2316703	1.00[ASN][1000 genomes]
rs28393435	0.85[ASN][1000 genomes]
rs28455989	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28475537	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28536106	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28561953	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28564625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28683026	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4521254	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60509851	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60782263	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61543943	0.82[ASN][1000 genomes]
rs61679258	0.85[ASN][1000 genomes]
rs62265731	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62265755	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62265756	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62265757	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62268572	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6419747	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6548789	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6548790	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6548793	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6548794	0.85[ASN][1000 genomes]
rs66870475	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6763269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6767358	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769852	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773980	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6774064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6774157	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6776655	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6778325	0.85[ASN][1000 genomes]
rs6778814	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6781140	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6792426	0.85[ASN][1000 genomes]
rs6793519	0.85[ASN][1000 genomes]
rs6805116	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7611244	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7611492	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7612452	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7614689	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7615354	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7619146	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7622355	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623648	0.95[EUR][1000 genomes]
rs7634781	0.86[EUR][1000 genomes]
rs7635092	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7639020	0.85[ASN][1000 genomes]
rs7639102	0.82[ASN][1000 genomes]
rs7639908	0.85[ASN][1000 genomes]
rs9309885	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9811625	0.95[EUR][1000 genomes]
rs9812010	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9812960	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9814587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9815442	0.95[EUR][1000 genomes]
rs9816690	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9817048	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs9819290	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9820525	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9820687	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9821368	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821506	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9821800	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9822483	0.95[EUR][1000 genomes]
rs9831887	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9832377	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834983	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9836048	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838997	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9840948	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9843444	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9845227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9848134	0.84[EUR][1000 genomes]
rs9849917	0.85[ASN][1000 genomes]
rs9851363	0.84[EUR][1000 genomes]
rs9853043	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9857313	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9857742	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9858684	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9859766	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9863450	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9866029	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9866312	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9866476	0.95[EUR][1000 genomes]
rs9867563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9868174	0.85[ASN][1000 genomes]
rs9868182	0.86[EUR][1000 genomes]
rs9869419	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869718	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872972	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9873073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9876062	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9876340	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9878115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9878768	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9882486	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9882687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9883163	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9883264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007167	chr3:82050178-82301466	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv877041	chr3:82074024-82363196	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1008429	chr3:82089650-82510536	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr3:82097800-82106400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:82100000-82104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:82101200-82104800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:82101600-82104800	Weak transcription	NHEK	skin
5	chr3:82104200-82104600	Enhancers	Skeletal Muscle Male	skeletal muscle
6	chr3:82104200-82105200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:82104200-82105400	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:82104200-82105600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:82104200-82105800	Enhancers	HMEC	breast

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