Variant report

Variant	rs9852859
Chromosome Location	chr3:85842341-85842342
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11721040	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11915638	0.85[TSI][hapmap]
rs11926524	1.00[CEU][hapmap]
rs12714637	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12714640	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13059866	1.00[MKK][hapmap]
rs13068138	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13078807	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13078960	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13085840	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13096280	0.91[MKK][hapmap]
rs13098327	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs13327074	1.00[YRI][hapmap]
rs1448612	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs1597213	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17355368	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2122042	0.89[CEU][hapmap];0.88[TSI][hapmap]
rs7355953	1.00[ASW][hapmap];1.00[MKK][hapmap]
rs7620339	0.84[CEU][hapmap];0.88[TSI][hapmap]
rs7622475	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs7638804	1.00[YRI][hapmap]
rs7640660	0.89[CEU][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs7640855	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9309990	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9309991	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9309994	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9309995	1.00[YRI][hapmap]
rs9818122	0.89[CEU][hapmap];0.88[TSI][hapmap]
rs9819476	0.91[MKK][hapmap]
rs9820014	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9826482	1.00[CEU][hapmap]
rs9834708	0.95[MKK][hapmap]
rs9837525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9852127	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9852478	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9869320	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9873441	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9875880	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9877300	1.00[YRI][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	chr3:85841000-85845000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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