Variant report

Variant	rs72805666
Chromosome Location	chr2:56005326-56005327
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:56004031..56006518-chr2:56068498..56070427,2	MCF-7	breast:
2	chr2:55942470..55944889-chr2:56004945..56007451,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11678312	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11679173	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11688992	0.87[EUR][1000 genomes]
rs11691041	0.81[EUR][1000 genomes]
rs11693381	0.87[EUR][1000 genomes]
rs1367229	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17047302	0.80[EUR][1000 genomes]
rs17369365	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2163238	0.84[EUR][1000 genomes]
rs4671258	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4671261	0.87[EUR][1000 genomes]
rs4672072	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55916998	0.84[EUR][1000 genomes]
rs55987978	0.82[EUR][1000 genomes]
rs56102096	0.84[EUR][1000 genomes]
rs57233927	0.84[EUR][1000 genomes]
rs59504093	0.84[EUR][1000 genomes]
rs60693760	0.84[EUR][1000 genomes]
rs6704679	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6705051	0.86[EUR][1000 genomes]
rs6719384	0.80[EUR][1000 genomes]
rs6735306	0.80[EUR][1000 genomes]
rs72797607	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797613	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72805668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72805673	0.87[EUR][1000 genomes]
rs72805674	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72805675	0.87[EUR][1000 genomes]
rs72807714	0.84[EUR][1000 genomes]
rs72807727	0.84[EUR][1000 genomes]
rs72807728	0.84[EUR][1000 genomes]
rs72807744	0.84[EUR][1000 genomes]
rs72814246	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531374	chr2:55653723-56299784	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv999962	chr2:55976574-56011517	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv997683	chr2:55976574-56013875	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv431080	chr2:55988293-56011517	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55989400-56015000	Weak transcription	Aorta	Aorta
2	chr2:56002400-56006600	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr2:56002800-56005400	Weak transcription	HUVEC	blood vessel
4	chr2:56003600-56007200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr2:56004000-56006000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr2:56004400-56006200	Weak transcription	NHEK	skin
7	chr2:56004800-56006400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:56005000-56005800	Genic enhancers	A549	lung
9	chr2:56005200-56005400	Enhancers	Hela-S3	cervix
10	chr2:56005200-56005400	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links