Variant report

Variant	rs4865586
Chromosome Location	chr5:54145009-54145010
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:53811747..53814242-chr5:54144763..54147305,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178996	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10036606	0.80[EUR][1000 genomes]
rs10040872	0.81[EUR][1000 genomes]
rs1005622	0.85[GIH][hapmap];0.89[TSI][hapmap]
rs10940430	0.81[EUR][1000 genomes]
rs11952681	0.80[EUR][1000 genomes]
rs11953607	0.81[EUR][1000 genomes]
rs13161386	0.83[EUR][1000 genomes]
rs13161718	0.83[EUR][1000 genomes]
rs13171964	0.80[EUR][1000 genomes]
rs1560167	0.85[GIH][hapmap];0.89[TSI][hapmap]
rs1965716	0.87[ASN][1000 genomes]
rs1988528	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1991498	0.85[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2017318	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2017540	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2407758	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2897758	0.84[ASN][1000 genomes]
rs3935813	0.90[ASN][1000 genomes]
rs4074332	0.93[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs4242046	0.80[EUR][1000 genomes]
rs4289528	0.80[EUR][1000 genomes]
rs4315891	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4320207	0.80[EUR][1000 genomes]
rs4320216	0.82[GIH][hapmap];0.94[TSI][hapmap];0.81[EUR][1000 genomes]
rs4336311	0.80[EUR][1000 genomes]
rs4373237	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4407587	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4437335	0.80[EUR][1000 genomes]
rs4446420	1.00[ASN][1000 genomes]
rs4451014	0.80[EUR][1000 genomes]
rs4582235	0.80[EUR][1000 genomes]
rs4865587	1.00[ASN][1000 genomes]
rs4865876	0.80[EUR][1000 genomes]
rs4865877	0.80[EUR][1000 genomes]
rs4865883	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6450253	0.80[EUR][1000 genomes]
rs6860824	1.00[CEU][hapmap];0.93[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6887578	0.80[EUR][1000 genomes]
rs6891667	0.90[ASN][1000 genomes]
rs6893903	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs734097	0.85[ASN][1000 genomes]
rs7446869	0.80[EUR][1000 genomes]
rs7448996	0.90[ASN][1000 genomes]
rs7708368	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7734613	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs976645	0.83[ASN][1000 genomes]
rs981978	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9968754	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830300	chr5:54056300-54257344	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3358092	chr5:54077828-54189150	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr5:54141600-54146400	Weak transcription	Hela-S3	cervix
2	chr5:54141800-54147200	Weak transcription	HMEC	breast

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