Variant report

Variant	rs420717
Chromosome Location	chr9:107986870-107986871
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:107979211..107982587-chr9:107983640..107987366,3	MCF-7	breast:
2	chr9:107984198..107987905-chr9:108005262..108007467,3	MCF-7	breast:
3	chr9:107986434..107988530-chr9:108007277..108010113,2	MCF-7	breast:
4	chr9:107986788..107989562-chr9:108004560..108006596,2	K562	blood:

Variant related genes	Relation type
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 160 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:150)

rs_ID	r²[population]
rs10820792	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs10820793	0.90[ASN][1000 genomes]
rs10820795	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs10820796	0.84[ASN][1000 genomes]
rs10991598	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10991600	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs10991601	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs10991607	0.90[ASN][1000 genomes]
rs10991611	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs10991612	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs10991613	0.90[ASN][1000 genomes]
rs10991614	0.90[ASN][1000 genomes]
rs10991617	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs10991618	0.92[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs12335779	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs12336008	0.90[ASN][1000 genomes]
rs12343678	0.93[ASN][1000 genomes]
rs12347364	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs12348136	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs12686574	0.90[ASN][1000 genomes]
rs167867	0.93[ASN][1000 genomes]
rs1705490	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1705491	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs170582	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs179177	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs182756	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs186617	0.90[ASN][1000 genomes]
rs189020	0.90[ASN][1000 genomes]
rs193007	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs193008	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs193009	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs2004725	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs2089807	0.90[ASN][1000 genomes]
rs2100044	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs227887	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs227888	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs2441214	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2900397	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327944	0.90[ASN][1000 genomes]
rs327945	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs327946	0.90[ASN][1000 genomes]
rs327947	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327948	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327949	0.90[ASN][1000 genomes]
rs327950	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327954	0.93[ASN][1000 genomes]
rs327955	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327956	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327958	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs327959	1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327960	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327961	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs327962	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs327963	0.93[ASN][1000 genomes]
rs327964	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs327966	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327967	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs327968	0.93[ASN][1000 genomes]
rs327975	0.90[ASN][1000 genomes]
rs327976	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327977	0.90[ASN][1000 genomes]
rs327978	0.90[ASN][1000 genomes]
rs327979	0.90[ASN][1000 genomes]
rs327980	0.90[ASN][1000 genomes]
rs327981	0.90[ASN][1000 genomes]
rs327982	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327983	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327984	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327985	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327986	0.90[ASN][1000 genomes]
rs327987	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327990	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327991	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327992	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327993	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs327995	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327996	0.93[ASN][1000 genomes]
rs327997	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs327998	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs327999	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs328000	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs328001	0.90[ASN][1000 genomes]
rs328002	0.90[ASN][1000 genomes]
rs328003	0.90[ASN][1000 genomes]
rs328004	0.90[ASN][1000 genomes]
rs328005	0.90[ASN][1000 genomes]
rs328006	1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs328007	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328008	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328010	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328011	0.90[ASN][1000 genomes]
rs328012	1.00[CHB][hapmap]
rs328013	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328014	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328015	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs328017	0.90[ASN][1000 genomes]
rs328018	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs328019	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs328020	0.93[ASN][1000 genomes]
rs328021	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs328022	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs35144319	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35584395	0.90[ASN][1000 genomes]
rs365629	0.92[CHB][hapmap]
rs366144	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs370629	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs371107	0.83[AMR][1000 genomes]
rs374445	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs375034	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs376926	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs377129	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs378467	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs380104	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs380667	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs382940	0.90[ASN][1000 genomes]
rs383126	0.90[CHB][hapmap]
rs383272	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs384924	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs384947	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs386565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs388679	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs390336	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs390701	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs391943	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs398454	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs403316	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs410897	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs416641	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs418057	0.90[ASN][1000 genomes]
rs419443	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs419834	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs422084	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs423976	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs424495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs435379	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs438299	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs439308	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs440290	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs442605	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs443094	1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs445964	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs446641	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs448836	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6479305	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7020772	0.89[ASN][1000 genomes]
rs7020982	0.88[CEU][hapmap];0.90[CHB][hapmap];0.90[ASN][1000 genomes]
rs7021008	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs7039398	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs7858967	0.84[ASN][1000 genomes]
rs7866947	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046935	chr9:107414720-108028061	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv893684	chr9:107893629-108001107	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv831678	chr9:107923522-108112813	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893685	chr9:107940737-108083485	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats 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	nsv1043466	chr9:107950174-108001988	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv893686	chr9:107968330-108083485	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv893687	chr9:107973277-108083485	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats 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
9	nsv893688	chr9:107974761-108083485	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv893689	chr9:107978563-108130606	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107980000-107989400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:107986000-107987400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
3	chr9:107986000-107987800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell

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