Variant report

Variant	rs12684886
Chromosome Location	chr9:85031852-85031853
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10113923	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10114756	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10123160	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10124221	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10125999	0.84[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10512125	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11139566	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11139570	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12002791	0.84[EUR][1000 genomes]
rs12002792	0.80[EUR][1000 genomes]
rs12551735	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13290278	0.87[AMR][1000 genomes]
rs13290374	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1411662	0.82[CHB][hapmap]
rs28520227	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2889949	0.85[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34637520	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35501117	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3892417	0.90[CEU][hapmap];0.82[CHB][hapmap]
rs4877232	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4877233	0.82[CHB][hapmap]
rs4877692	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4877693	0.84[CEU][hapmap];0.86[CHB][hapmap]
rs7048894	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7854052	0.95[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap]
rs7865649	0.81[AMR][1000 genomes]
rs7869176	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7874021	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7874946	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]

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	nsv893507	chr9:84799537-85097651	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv893508	chr9:84954592-85080395	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893509	chr9:84954592-85097651	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893510	chr9:84954592-85117420	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv3346373	chr9:85031614-85032012	Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85028000-85033200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:85028600-85037400	Weak transcription	Fetal Intestine Small	intestine

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