Variant report

Variant	rs62280349
Chromosome Location	chr3:132933120-132933121
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs10428109	0.87[AMR][1000 genomes]
rs10428218	0.86[AMR][1000 genomes]
rs10446319	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10446320	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10512895	0.89[AMR][1000 genomes]
rs10935052	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10935053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10935055	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10935056	0.89[AMR][1000 genomes]
rs10935058	0.87[AMR][1000 genomes]
rs11706654	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11708546	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11710126	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11711460	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11712573	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11715376	0.88[AMR][1000 genomes]
rs11718689	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11720441	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11916334	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11917647	0.88[AMR][1000 genomes]
rs11919010	0.89[AMR][1000 genomes]
rs11919147	0.87[AMR][1000 genomes]
rs11919306	0.87[AMR][1000 genomes]
rs11920436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922161	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11922891	0.86[AMR][1000 genomes]
rs11922977	0.88[AMR][1000 genomes]
rs11925242	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11926108	0.86[AMR][1000 genomes]
rs11926667	0.88[AMR][1000 genomes]
rs12152547	0.87[AMR][1000 genomes]
rs12496099	0.81[AMR][1000 genomes]
rs12633060	0.81[ASN][1000 genomes]
rs12633881	0.87[AMR][1000 genomes]
rs12634330	0.82[ASN][1000 genomes]
rs12637903	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13063196	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1349297	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1355776	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1513361	0.84[AMR][1000 genomes]
rs1513373	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16840188	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16840195	0.88[AMR][1000 genomes]
rs16840198	0.87[AMR][1000 genomes]
rs16840213	0.87[AMR][1000 genomes]
rs16840222	0.89[AMR][1000 genomes]
rs16840226	0.87[AMR][1000 genomes]
rs16840271	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17297754	0.89[AMR][1000 genomes]
rs17298063	0.89[AMR][1000 genomes]
rs1877584	0.87[AMR][1000 genomes]
rs1877586	0.88[AMR][1000 genomes]
rs1881919	0.88[AMR][1000 genomes]
rs1920020	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1949220	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2122399	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2370051	0.90[AMR][1000 genomes]
rs28883687	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35224447	0.87[AMR][1000 genomes]
rs35753560	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3849404	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3849405	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3849406	0.88[AMR][1000 genomes]
rs3897879	0.89[AMR][1000 genomes]
rs3914306	0.87[AMR][1000 genomes]
rs4089503	0.87[AMR][1000 genomes]
rs4254659	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4306857	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4459902	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4507250	0.87[AMR][1000 genomes]
rs4541408	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4600815	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4642122	0.88[AMR][1000 genomes]
rs4854577	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4854579	0.89[AMR][1000 genomes]
rs4854705	0.83[AMR][1000 genomes]
rs4854706	0.90[AMR][1000 genomes]
rs4854707	0.91[AMR][1000 genomes]
rs4854712	0.88[AMR][1000 genomes]
rs4854713	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55694539	0.88[AMR][1000 genomes]
rs55716424	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55769323	0.89[AMR][1000 genomes]
rs55794041	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55854402	0.86[AMR][1000 genomes]
rs55856984	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55872831	0.87[AMR][1000 genomes]
rs55929614	0.89[AMR][1000 genomes]
rs56188630	0.87[AMR][1000 genomes]
rs56226608	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56290147	0.88[AMR][1000 genomes]
rs56940649	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57116584	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57420262	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57702813	0.89[AMR][1000 genomes]
rs58238138	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58372281	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59007455	0.90[AMR][1000 genomes]
rs59204212	0.87[AMR][1000 genomes]
rs60078509	0.87[AMR][1000 genomes]
rs60141688	0.91[AMR][1000 genomes]
rs60961447	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60990354	0.87[AMR][1000 genomes]
rs61458354	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62278973	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62278976	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs62279002	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62279005	0.88[AMR][1000 genomes]
rs62279009	0.87[AMR][1000 genomes]
rs62279012	0.89[AMR][1000 genomes]
rs62279014	0.87[AMR][1000 genomes]
rs62279015	0.87[AMR][1000 genomes]
rs62279016	0.89[AMR][1000 genomes]
rs62280351	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280352	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280355	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62280359	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62280863	0.83[AMR][1000 genomes]
rs62282263	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6439389	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66973086	0.90[AMR][1000 genomes]
rs6766263	0.89[AMR][1000 genomes]
rs6774247	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6803600	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6805892	0.88[AMR][1000 genomes]
rs6809033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs713441	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7617947	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7619504	0.84[AMR][1000 genomes]
rs7622617	0.85[AMR][1000 genomes]
rs7624858	0.82[AMR][1000 genomes]
rs7625157	0.87[AMR][1000 genomes]
rs7626326	0.89[AMR][1000 genomes]
rs7627254	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7632905	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7634139	0.81[AMR][1000 genomes]
rs7636781	0.87[AMR][1000 genomes]
rs7639076	0.82[AMR][1000 genomes]
rs7641051	0.91[AMR][1000 genomes]
rs7647133	0.88[AMR][1000 genomes]
rs7648973	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs766952	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs769097	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs938237	0.87[AMR][1000 genomes]
rs9809358	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9866337	0.81[AMR][1000 genomes];0.81[ASN][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	nsv530055	chr3:132380878-132982343	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:132928600-132933200	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr3:132932800-132933200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:132933000-132933400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links