Variant report

Variant	rs401607
Chromosome Location	chr5:116931675-116931676
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	chr5:116929272..116931860-chr5:116932599..116935583,2	MCF-7	breast:

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs13164296	0.83[ASN][1000 genomes]
rs13164536	0.83[ASN][1000 genomes]
rs13177703	1.00[JPT][hapmap]
rs1352587	0.84[ASN][1000 genomes]
rs1366184	0.83[ASN][1000 genomes]
rs166494	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1686411	0.84[ASN][1000 genomes]
rs1686412	0.84[ASN][1000 genomes]
rs17142939	0.83[ASN][1000 genomes]
rs1725962	0.84[ASN][1000 genomes]
rs174740	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1820667	0.83[ASN][1000 genomes]
rs197446	0.84[ASN][1000 genomes]
rs2036576	0.84[ASN][1000 genomes]
rs2036577	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2451229	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2657043	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs265862	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs265904	0.84[ASN][1000 genomes]
rs265908	0.84[ASN][1000 genomes]
rs265909	0.84[ASN][1000 genomes]
rs267019	1.00[ASN][1000 genomes]
rs267059	1.00[ASN][1000 genomes]
rs267060	1.00[ASN][1000 genomes]
rs267062	1.00[ASN][1000 genomes]
rs267063	1.00[ASN][1000 genomes]
rs267064	1.00[ASN][1000 genomes]
rs267065	1.00[ASN][1000 genomes]
rs267066	1.00[ASN][1000 genomes]
rs267068	1.00[ASN][1000 genomes]
rs267069	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs267073	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs267074	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs267075	0.84[ASN][1000 genomes]
rs267077	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs267078	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs267084	0.84[ASN][1000 genomes]
rs34374339	0.83[ASN][1000 genomes]
rs35183133	0.83[ASN][1000 genomes]
rs35753719	0.83[ASN][1000 genomes]
rs365600	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs366335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs369130	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs374057	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs378387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs382548	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs386139	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862062	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs387069	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs388253	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs388643	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs390818	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392437	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs398793	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs400845	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs402131	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs402578	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs408218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs410212	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs411705	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs412087	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs423450	0.84[ASN][1000 genomes]
rs428812	1.00[ASN][1000 genomes]
rs431360	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs435028	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs435524	0.85[EUR][1000 genomes]
rs441635	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs445048	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs448217	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55788310	0.83[ASN][1000 genomes]
rs55912291	0.83[ASN][1000 genomes]
rs584659	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs611501	1.00[ASN][1000 genomes]
rs612365	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62380061	0.83[ASN][1000 genomes]
rs636060	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66497971	0.83[ASN][1000 genomes]
rs6861435	0.83[ASN][1000 genomes]
rs6887390	0.83[ASN][1000 genomes]
rs6899129	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs841998	1.00[ASN][1000 genomes]
rs842004	1.00[ASN][1000 genomes]
rs842005	1.00[ASN][1000 genomes]
rs842006	1.00[ASN][1000 genomes]
rs842007	1.00[ASN][1000 genomes]
rs923450	0.84[ASN][1000 genomes]
rs923451	0.84[ASN][1000 genomes]
rs962006	0.83[ASN][1000 genomes]
rs962007	0.83[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	nsv882757	chr5:116810010-117042759	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv830458	chr5:116831747-117003041	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv1016664	chr5:116888074-117181273	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1019332	chr5:116888074-117248632	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:116930000-116935600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links