Variant report

Variant	rs9828689
Chromosome Location	chr3:22002350-22002351
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:126141332..126144254-chr3:22001697..22003217,2	K562	blood:

Variant related genes	Relation type
ENSG00000110074	Chromatin interaction

Extended variants
information (count: 182 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:161)

rs_ID	r²[population]
rs10440125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11706252	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12330142	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12638980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13061226	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13066816	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13095013	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1383073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1391330	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1391331	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479965	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1479968	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479969	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1479984	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1486332	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1486333	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1486372	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1497925	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1497938	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1497939	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1626065	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1679239	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1684488	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1684495	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1694015	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1694016	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1694042	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17010418	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1842308	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1842309	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1843634	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1846165	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1846166	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2061938	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2061939	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2061940	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2291821	0.88[ASN][1000 genomes]
rs2593314	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2593325	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs259482	0.80[ASN][1000 genomes]
rs259564	0.93[ASN][1000 genomes]
rs259566	0.93[ASN][1000 genomes]
rs259568	0.84[AFR][1000 genomes]
rs259569	0.88[ASN][1000 genomes]
rs259570	0.82[AFR][1000 genomes]
rs2620536	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34025961	0.87[ASN][1000 genomes]
rs34708854	0.84[ASN][1000 genomes]
rs35478822	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35541916	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3821386	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821388	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821389	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821390	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3821392	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3821393	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3821394	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4270525	0.83[ASN][1000 genomes]
rs4271936	0.88[ASN][1000 genomes]
rs4348015	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4420894	0.89[ASN][1000 genomes]
rs4440143	0.88[ASN][1000 genomes]
rs4441677	0.82[ASN][1000 genomes]
rs4610243	0.89[ASN][1000 genomes]
rs4610244	0.89[ASN][1000 genomes]
rs4627765	0.81[ASN][1000 genomes]
rs472117	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs473395	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs474387	0.84[ASN][1000 genomes]
rs476982	0.84[ASN][1000 genomes]
rs478011	0.84[ASN][1000 genomes]
rs478832	0.84[ASN][1000 genomes]
rs479923	0.83[ASN][1000 genomes]
rs485483	0.88[ASN][1000 genomes]
rs485569	0.90[ASN][1000 genomes]
rs500881	0.89[ASN][1000 genomes]
rs501056	0.88[ASN][1000 genomes]
rs502259	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs503119	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs504039	0.85[ASN][1000 genomes]
rs504757	0.80[ASN][1000 genomes]
rs504917	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs509513	0.85[ASN][1000 genomes]
rs521724	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs536133	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs536196	0.89[ASN][1000 genomes]
rs536986	0.85[ASN][1000 genomes]
rs537870	0.85[ASN][1000 genomes]
rs549089	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs552049	0.80[ASN][1000 genomes]
rs555719	0.81[AFR][1000 genomes]
rs559082	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs559861	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs559894	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs562629	0.82[ASN][1000 genomes]
rs563648	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs568153	0.86[ASN][1000 genomes]
rs581184	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs586425	0.87[ASN][1000 genomes]
rs599540	0.88[ASN][1000 genomes]
rs610316	0.85[ASN][1000 genomes]
rs610320	0.85[ASN][1000 genomes]
rs611146	0.85[ASN][1000 genomes]
rs611545	0.85[ASN][1000 genomes]
rs613768	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs615095	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs618682	0.90[ASN][1000 genomes]
rs625615	0.85[ASN][1000 genomes]
rs627323	0.83[ASN][1000 genomes]
rs627773	0.84[ASN][1000 genomes]
rs627776	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs628155	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs628226	0.84[ASN][1000 genomes]
rs629944	0.88[ASN][1000 genomes]
rs630299	0.86[ASN][1000 genomes]
rs630769	0.89[ASN][1000 genomes]
rs631246	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs632070	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs638809	0.83[ASN][1000 genomes]
rs638844	0.84[ASN][1000 genomes]
rs641517	0.84[ASN][1000 genomes]
rs641518	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs641910	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs642045	0.84[ASN][1000 genomes]
rs645017	0.89[ASN][1000 genomes]
rs662789	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs671377	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs675415	0.84[ASN][1000 genomes]
rs680685	0.80[ASN][1000 genomes]
rs7433115	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7639658	0.88[ASN][1000 genomes]
rs779029	0.87[EUR][1000 genomes]
rs779030	0.86[EUR][1000 genomes]
rs9310668	0.83[ASN][1000 genomes]
rs9809089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9809324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9810225	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9811248	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9811419	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9814232	0.80[ASN][1000 genomes]
rs9816540	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9821571	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9821707	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9821722	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9821912	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9822011	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9828376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9834671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9841763	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9849994	0.80[ASN][1000 genomes]
rs9854012	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9854895	0.83[ASN][1000 genomes]
rs9859355	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9870712	0.81[ASN][1000 genomes]
rs9873106	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9873232	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9879603	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9879858	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534005	chr3:21387588-22003293	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2751992	chr3:21786893-22212357	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv948555	chr3:21786893-22212357	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1003085	chr3:21887971-22415107	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv834633	chr3:21918264-22088338	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv876616	chr3:21946847-22310622	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv876617	chr3:21955784-22310622	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv999478	chr3:21971861-22012241	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
9	nsv1000732	chr3:21976969-22012241	Enhancers Flanking Active TSS Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
10	nsv1007663	chr3:21984364-22022923	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
11	nsv1014467	chr3:21985380-22008097	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
12	nsv1014852	chr3:21985380-22010086	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
13	nsv1012249	chr3:21985380-22012241	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
14	nsv1009404	chr3:21985380-22018041	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
15	nsv1001030	chr3:21985380-22022923	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
16	nsv460474	chr3:21985417-22047934	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
17	nsv589932	chr3:21985417-22047934	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
18	nsv1007886	chr3:21985691-22018041	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
19	esv20823	chr3:21997842-22002489	Weak transcription Enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
20	nsv998319	chr3:21999480-22033364	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
21	nsv432404	chr3:22000296-22433396	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21997400-22003000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr3:21997600-22003200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:22001600-22003600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:22002200-22003600	Weak transcription	Liver	Liver

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