Variant report

Variant	rs6780475
Chromosome Location	chr3:156658064-156658065
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156530062..156530904-chr3:156657813..156658529,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11914959	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1320011	0.88[EUR][1000 genomes]
rs1574980	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2321291	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2321293	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2874488	0.85[EUR][1000 genomes]
rs344079	0.81[EUR][1000 genomes]
rs344080	0.81[EUR][1000 genomes]
rs344082	0.81[EUR][1000 genomes]
rs344084	0.81[EUR][1000 genomes]
rs344087	0.81[EUR][1000 genomes]
rs416600	0.81[EUR][1000 genomes]
rs453219	0.84[EUR][1000 genomes]
rs4680311	0.85[EUR][1000 genomes]
rs4680313	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4680314	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6441101	0.85[EUR][1000 genomes]
rs6762708	0.91[EUR][1000 genomes]
rs6765353	0.84[EUR][1000 genomes]
rs6783162	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7622309	0.88[EUR][1000 genomes]
rs7638330	0.85[EUR][1000 genomes]
rs873337	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9826073	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9862338	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9863643	0.85[EUR][1000 genomes]
rs9870137	0.85[EUR][1000 genomes]
rs9876148	0.85[EUR][1000 genomes]
rs9882009	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9883439	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][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	nsv829765	chr3:156568263-156718496	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv592120	chr3:156626091-156691604	Enhancers Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6780475	LINC00886	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156656800-156658200	Enhancers	Fetal Intestine Large	intestine
2	chr3:156658000-156658400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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