Variant report

Variant	rs6772578
Chromosome Location	chr3:160760851-160760852
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	chr3:160739787..160741430-chr3:160758858..160761533,2	MCF-7	breast:
2	chr3:160759280..160760955-chr3:160782590..160785077,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1037888	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10513562	0.90[EUR][1000 genomes]
rs11708076	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13066683	0.86[AMR][1000 genomes]
rs13098884	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1599383	0.83[AMR][1000 genomes]
rs1599386	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1610158	0.83[AMR][1000 genomes]
rs2306061	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2593812	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4342141	0.82[EUR][1000 genomes]
rs4616689	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4679671	0.90[EUR][1000 genomes]
rs5004752	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55672403	0.85[EUR][1000 genomes]
rs62280331	0.84[EUR][1000 genomes]
rs62280333	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6769642	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6774635	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6786871	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6806054	0.87[EUR][1000 genomes]
rs7619011	0.86[AMR][1000 genomes]
rs7622047	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7628880	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7630674	0.86[AMR][1000 genomes]
rs7632423	0.89[EUR][1000 genomes]
rs7650703	0.86[AMR][1000 genomes]
rs778642	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778643	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778645	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778646	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778648	0.83[EUR][1000 genomes]
rs778649	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs778653	0.87[EUR][1000 genomes]
rs778654	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs778657	0.87[EUR][1000 genomes]
rs778663	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs796609	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs898680	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs898681	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9290065	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs980975	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs980976	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9811594	0.90[EUR][1000 genomes]
rs9820825	0.85[AMR][1000 genomes]
rs9831488	0.82[ASN][1000 genomes]
rs9847866	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9848239	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9860360	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9875200	0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160745200-160782600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:160753800-160763200	Weak transcription	Primary T cells from cord blood	blood
3	chr3:160759600-160761800	Enhancers	Osteobl	bone
4	chr3:160760200-160761000	Weak transcription	Fetal Brain Female	brain
5	chr3:160760200-160761400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:160760800-160761800	Enhancers	GM12878-XiMat	blood
7	chr3:160760800-160767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links