Variant report

Variant	rs7613828
Chromosome Location	chr3:85851246-85851247
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11721040	0.81[AFR][1000 genomes]
rs11923789	1.00[CEU][hapmap]
rs1448606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2009641	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2122042	0.82[LWK][hapmap];0.80[YRI][hapmap]
rs2875492	1.00[CEU][hapmap]
rs4519715	1.00[CEU][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57177092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58800887	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60819488	0.83[EUR][1000 genomes]
rs61327946	1.00[EUR][1000 genomes]
rs61371129	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61678625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6770050	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6792733	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes]
rs73843505	1.00[EUR][1000 genomes]
rs73843506	1.00[EUR][1000 genomes]
rs73843507	1.00[EUR][1000 genomes]
rs73843508	1.00[EUR][1000 genomes]
rs73843510	1.00[EUR][1000 genomes]
rs73843512	1.00[EUR][1000 genomes]
rs73845643	0.84[AFR][1000 genomes]
rs73845644	0.84[AFR][1000 genomes]
rs73845645	0.81[AFR][1000 genomes]
rs73845646	0.81[AFR][1000 genomes]
rs73845664	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845665	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845669	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845688	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845689	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7612504	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7615807	1.00[CEU][hapmap];0.94[YRI][hapmap]
rs7616471	1.00[CEU][hapmap]
rs7620339	0.84[ASW][hapmap];0.82[LWK][hapmap]
rs7626235	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7650537	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9818122	0.82[LWK][hapmap];0.80[YRI][hapmap]
rs9819299	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv877106	chr3:85814620-86006210	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv877107	chr3:85814620-86037162	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island 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	chr3:85849800-85851400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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