Variant report

Variant	rs55861012
Chromosome Location	chr3:28560682-28560683
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs11915164	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11915400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11918088	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11918573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11919446	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11923033	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11923095	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11923748	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11926821	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11926954	1.00[AMR][1000 genomes]
rs11927699	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55634652	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55650840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55758484	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55817728	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55934504	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs55962685	1.00[AMR][1000 genomes]
rs56082224	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56196031	0.85[AMR][1000 genomes]
rs56199335	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56361125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57400334	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57850842	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58272663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58279309	0.82[AFR][1000 genomes]
rs59066362	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59284522	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs59337423	0.85[AMR][1000 genomes]
rs59962663	1.00[AMR][1000 genomes]
rs60355399	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60984094	0.83[AMR][1000 genomes]
rs6794482	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6800120	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6800367	0.83[AMR][1000 genomes]
rs6804419	1.00[AMR][1000 genomes]
rs73822639	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73822644	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73822646	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73822647	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823975	0.83[AMR][1000 genomes]
rs73823977	0.85[AMR][1000 genomes]
rs73823978	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823979	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823980	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823981	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823982	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823983	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823984	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823985	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823986	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823988	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823989	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823991	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823994	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823995	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823996	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823998	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73824000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73824001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825145	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825155	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825158	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825159	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825160	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825164	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826004	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826005	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826007	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826008	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826012	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826013	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826014	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826015	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826017	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826021	0.85[AMR][1000 genomes]
rs73826022	0.85[AMR][1000 genomes]
rs73826024	1.00[AMR][1000 genomes]
rs73826025	0.85[AMR][1000 genomes]
rs7620049	1.00[AMR][1000 genomes]
rs7627778	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7649677	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv876650	chr3:28427029-28613602	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1015015	chr3:28461972-28728494	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv590010	chr3:28469830-28727214	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1004457	chr3:28541307-28595311	Strong transcription Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28514800-28575800	Weak transcription	Ovary	ovary

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