Variant report

Variant	rs1883528
Chromosome Location	chr20:25580959-25580960
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:25578107..25581222-chr20:25601982..25605095,3	MCF-7	breast:
2	chr20:25579638..25582269-chr20:25599435..25601779,2	K562	blood:
3	chr20:25560873..25562976-chr20:25579297..25581436,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170191	Chromatin interaction
ENSG00000213742	Chromatin interaction

Extended variants
information (count: 209 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:193)

rs_ID	r²[population]
rs1047171	1.00[JPT][hapmap]
rs10485776	1.00[JPT][hapmap]
rs11087521	1.00[JPT][hapmap]
rs1109100	1.00[JPT][hapmap]
rs1122769	1.00[JPT][hapmap]
rs11699203	1.00[JPT][hapmap]
rs12106173	1.00[JPT][hapmap]
rs12428	1.00[JPT][hapmap]
rs1569617	1.00[JPT][hapmap];0.97[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16987767	0.86[JPT][hapmap]
rs16987786	1.00[JPT][hapmap]
rs16987789	1.00[JPT][hapmap]
rs16987799	1.00[JPT][hapmap]
rs16987820	1.00[JPT][hapmap]
rs16987934	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs16988014	1.00[JPT][hapmap]
rs2006249	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2103661	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2151144	1.00[JPT][hapmap]
rs2179458	1.00[JPT][hapmap]
rs2387977	0.82[JPT][hapmap]
rs242130	0.80[ASN][1000 genomes]
rs242133	1.00[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2424719	1.00[JPT][hapmap]
rs2482911	1.00[JPT][hapmap]
rs2482918	1.00[JPT][hapmap]
rs2500406	1.00[JPT][hapmap]
rs2500424	1.00[JPT][hapmap]
rs2500436	1.00[JPT][hapmap]
rs2856	1.00[JPT][hapmap]
rs2892408	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35516971	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs372678	1.00[JPT][hapmap]
rs3761117	1.00[JPT][hapmap]
rs3813916	1.00[JPT][hapmap]
rs397119	1.00[JPT][hapmap]
rs398036	1.00[JPT][hapmap]
rs401166	1.00[JPT][hapmap]
rs402120	1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs409322	0.82[AFR][1000 genomes]
rs41308623	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs417110	1.00[JPT][hapmap]
rs417130	1.00[JPT][hapmap]
rs422844	1.00[JPT][hapmap]
rs424487	1.00[JPT][hapmap]
rs426563	1.00[JPT][hapmap];0.90[YRI][hapmap]
rs4280527	0.80[ASN][1000 genomes]
rs428278	1.00[JPT][hapmap];0.86[YRI][hapmap]
rs431579	1.00[JPT][hapmap]
rs433352	1.00[JPT][hapmap]
rs437635	1.00[JPT][hapmap]
rs442834	1.00[JPT][hapmap]
rs446649	1.00[JPT][hapmap]
rs447808	1.00[JPT][hapmap]
rs449370	1.00[JPT][hapmap]
rs449703	1.00[JPT][hapmap]
rs454723	1.00[JPT][hapmap]
rs4813572	0.82[AFR][1000 genomes]
rs4815436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4815445	1.00[JPT][hapmap]
rs58877578	0.94[ASN][1000 genomes]
rs6037128	1.00[JPT][hapmap]
rs6037131	1.00[JPT][hapmap]
rs6037133	1.00[JPT][hapmap]
rs6037159	1.00[JPT][hapmap];0.97[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6037161	1.00[JPT][hapmap];0.97[YRI][hapmap];0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6037164	1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6037166	1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6037167	1.00[JPT][hapmap];0.97[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6037168	0.85[ASN][1000 genomes]
rs6037179	0.92[AFR][1000 genomes]
rs6037180	0.92[AFR][1000 genomes]
rs6037192	0.90[AFR][1000 genomes]
rs6037193	0.92[AFR][1000 genomes]
rs6037195	0.82[JPT][hapmap]
rs6037196	1.00[JPT][hapmap]
rs6037198	0.81[AFR][1000 genomes]
rs6037199	1.00[JPT][hapmap];0.80[YRI][hapmap]
rs6037222	0.82[JPT][hapmap]
rs6037223	1.00[JPT][hapmap];0.82[YRI][hapmap]
rs60394570	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6050590	1.00[JPT][hapmap]
rs6050598	1.00[JPT][hapmap]
rs6050599	1.00[JPT][hapmap]
rs6050611	1.00[JPT][hapmap]
rs6050626	1.00[JPT][hapmap]
rs6050663	1.00[JPT][hapmap]
rs6050692	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6050707	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050709	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050710	1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050712	1.00[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050714	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050717	1.00[JPT][hapmap];0.97[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050720	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050723	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050724	1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050725	1.00[JPT][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050726	1.00[JPT][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050727	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050729	0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050730	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050732	1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050733	1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050737	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6050743	0.89[AFR][1000 genomes]
rs6050745	0.90[AFR][1000 genomes]
rs6050749	0.87[AFR][1000 genomes]
rs6050753	0.89[AFR][1000 genomes]
rs6050754	0.87[AFR][1000 genomes]
rs6050758	0.92[AFR][1000 genomes]
rs6050767	1.00[JPT][hapmap]
rs6050768	0.89[AFR][1000 genomes]
rs6050770	1.00[JPT][hapmap]
rs6050779	1.00[JPT][hapmap]
rs6050788	1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes]
rs6050789	1.00[JPT][hapmap]
rs6050791	1.00[JPT][hapmap]
rs6050795	0.81[AFR][1000 genomes]
rs6050796	1.00[JPT][hapmap]
rs6050799	1.00[JPT][hapmap]
rs6050804	0.81[AFR][1000 genomes]
rs6050807	0.83[ASN][1000 genomes]
rs6050858	1.00[JPT][hapmap]
rs6050867	1.00[JPT][hapmap]
rs6076372	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6083853	1.00[JPT][hapmap]
rs6083862	0.86[JPT][hapmap]
rs6083886	1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6083896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6083897	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6083899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6083902	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6107045	1.00[JPT][hapmap]
rs6107047	1.00[JPT][hapmap]
rs6115191	1.00[JPT][hapmap]
rs6115200	1.00[JPT][hapmap]
rs6115214	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6115215	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6115220	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6115224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6115232	1.00[JPT][hapmap]
rs6132848	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6132850	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6138572	1.00[JPT][hapmap]
rs6138575	1.00[JPT][hapmap]
rs6138588	1.00[JPT][hapmap]
rs6138600	1.00[JPT][hapmap]
rs6138608	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6138612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6138613	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7261537	0.82[ASN][1000 genomes]
rs7261902	0.94[ASN][1000 genomes]
rs7266130	1.00[JPT][hapmap]
rs7266592	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7270835	1.00[JPT][hapmap]
rs7274550	0.94[ASN][1000 genomes]
rs73337355	0.94[ASN][1000 genomes]
rs73337356	0.94[ASN][1000 genomes]
rs73337364	0.94[ASN][1000 genomes]
rs73337366	0.94[ASN][1000 genomes]
rs73337369	0.94[ASN][1000 genomes]
rs73337372	0.94[ASN][1000 genomes]
rs73337394	0.94[ASN][1000 genomes]
rs73337401	0.94[ASN][1000 genomes]
rs73339323	0.94[ASN][1000 genomes]
rs73339335	0.94[ASN][1000 genomes]
rs73339360	0.88[ASN][1000 genomes]
rs73339379	0.82[ASN][1000 genomes]
rs73339383	0.82[ASN][1000 genomes]
rs73339387	0.82[ASN][1000 genomes]
rs73341305	0.82[ASN][1000 genomes]
rs73341314	0.82[ASN][1000 genomes]
rs73341328	0.82[ASN][1000 genomes]
rs7346687	0.89[AFR][1000 genomes]
rs742435	1.00[JPT][hapmap]
rs761025	1.00[JPT][hapmap]
rs8115742	1.00[JPT][hapmap]
rs8116267	1.00[JPT][hapmap]
rs8117181	1.00[JPT][hapmap]
rs8120065	1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs8120594	1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs8120972	0.94[ASN][1000 genomes]
rs8121013	0.93[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs8121648	1.00[JPT][hapmap]
rs8125002	0.82[ASN][1000 genomes]
rs8126111	0.88[ASN][1000 genomes]
rs8126236	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs84816	1.00[JPT][hapmap]
rs926486	1.00[JPT][hapmap]
rs926487	1.00[JPT][hapmap]
rs928121	1.00[JPT][hapmap]
rs981441	1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067379	chr20:25355484-25593240	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1060591	chr20:25388781-25628750	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv544223	chr20:25388781-25628750	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1067441	chr20:25397566-25615439	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv912828	chr20:25433015-25595175	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1062452	chr20:25438025-25590278	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1066066	chr20:25439367-25588016	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv544224	chr20:25439367-25588016	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv912829	chr20:25444242-25595175	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv912830	chr20:25449945-25595175	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912831	chr20:25449945-25595868	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv994976	chr20:25466406-25593286	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv534623	chr20:25466406-25593296	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	esv2762069	chr20:25506582-25619528	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
15	nsv912832	chr20:25527984-25595175	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
16	nsv912833	chr20:25539486-25595175	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25573800-25581000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr20:25573800-25590400	Weak transcription	Thymus	Thymus
3	chr20:25576000-25585800	Weak transcription	Fetal Stomach	stomach
4	chr20:25576800-25581000	Weak transcription	HepG2	liver
5	chr20:25580200-25603000	Weak transcription	Fetal Brain Male	brain
6	chr20:25580600-25581400	Enhancers	Fetal Heart	heart
7	chr20:25580600-25582000	Enhancers	Osteobl	bone
8	chr20:25580800-25581400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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