Variant report

Variant	rs9854025
Chromosome Location	chr3:55851020-55851021
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:55850876..55853376-chr3:55857822..55860534,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1495365	0.87[CHB][hapmap]
rs1495366	0.87[CHB][hapmap]
rs17332241	0.81[ASN][1000 genomes]
rs2168818	0.84[ASN][1000 genomes]
rs4129821	0.84[ASN][1000 genomes]
rs4129822	0.84[ASN][1000 genomes]
rs4129823	0.81[ASN][1000 genomes]
rs4299453	0.81[ASN][1000 genomes]
rs4459870	0.86[ASN][1000 genomes]
rs4493400	0.84[ASN][1000 genomes]
rs4955877	0.88[CHB][hapmap]
rs4955878	0.87[CHB][hapmap]
rs4955879	0.81[ASN][1000 genomes]
rs4955882	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4955884	0.87[ASN][1000 genomes]
rs4974113	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4974145	0.84[ASN][1000 genomes]
rs4974147	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7615473	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9815001	0.88[CEU][hapmap];0.94[CHB][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9835091	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9840522	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9852746	0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9852888	0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9853067	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9854247	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857120	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9860951	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9874792	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876814	chr3:55802749-55860526	Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv590361	chr3:55834871-55876104	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55847600-55860200	Weak transcription	Fetal Lung	lung
2	chr3:55848000-55852800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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