Variant report

Variant	rs11923899
Chromosome Location	chr3:60660644-60660645
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs11130780	1.00[CEU][hapmap]
rs11921025	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs11922545	1.00[CHB][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11923145	0.88[EUR][1000 genomes]
rs11926456	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs11928674	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13321532	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17063778	1.00[CHB][hapmap];0.84[YRI][hapmap];0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17063781	1.00[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1716726	1.00[CEU][hapmap]
rs4393862	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4402886	0.90[YRI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57004000	0.94[EUR][1000 genomes]
rs58195903	0.88[EUR][1000 genomes]
rs58745931	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62249274	0.83[EUR][1000 genomes]
rs62249304	0.88[EUR][1000 genomes]
rs62251491	1.00[ASN][1000 genomes]
rs62251492	0.83[AFR][1000 genomes]
rs62251493	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs62251495	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62251496	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62251499	1.00[ASN][1000 genomes]
rs62251500	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62251501	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62251502	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62251532	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62251534	0.94[EUR][1000 genomes]
rs62251535	0.94[EUR][1000 genomes]
rs62251537	0.94[EUR][1000 genomes]
rs62251538	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62251539	0.94[EUR][1000 genomes]
rs62251540	0.94[EUR][1000 genomes]
rs62251541	0.94[EUR][1000 genomes]
rs6446150	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6772346	0.94[EUR][1000 genomes]
rs6784732	0.95[YRI][hapmap];0.94[AFR][1000 genomes]
rs6789900	0.94[EUR][1000 genomes]
rs6793104	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797892	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs72875002	0.94[EUR][1000 genomes]
rs7618351	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7636178	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7638652	0.94[EUR][1000 genomes]
rs7638754	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7641604	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7642546	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9311772	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9311773	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9810266	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811304	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9814237	0.94[EUR][1000 genomes]
rs9816751	0.94[EUR][1000 genomes]
rs9816956	0.94[EUR][1000 genomes]
rs9818734	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9824756	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9826128	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9826570	0.88[EUR][1000 genomes]
rs9827312	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9827340	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9828898	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9830759	1.00[EUR][1000 genomes]
rs9832938	0.94[EUR][1000 genomes]
rs9834653	0.94[EUR][1000 genomes]
rs9838172	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9838335	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9838669	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9839019	0.88[EUR][1000 genomes]
rs9839778	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9840107	0.94[EUR][1000 genomes]
rs9840473	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9844497	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9845813	0.94[EUR][1000 genomes]
rs9861551	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9861707	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9866844	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9868891	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9872622	0.94[EUR][1000 genomes]
rs9874852	0.94[EUR][1000 genomes]
rs9875027	0.94[EUR][1000 genomes]
rs9876876	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9878020	0.83[EUR][1000 genomes]
rs9878248	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9878383	0.94[EUR][1000 genomes]
rs9881065	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9882477	1.00[CEU][hapmap];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529602	chr3:60088353-60830769	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv998815	chr3:60495872-60830769	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv999828	chr3:60537384-60785274	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60658600-60664400	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr3:60660400-60661200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:60660400-60661400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:60660600-60660800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links