Variant report

Variant	rs1540859
Chromosome Location	chr2:188170060-188170061
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 145 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs10174456	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10179705	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10181845	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10191833	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10194145	0.81[ASN][1000 genomes]
rs10194247	0.81[ASN][1000 genomes]
rs10203398	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10203781	0.81[ASN][1000 genomes]
rs10931283	0.96[CEU][hapmap]
rs10931284	0.92[CEU][hapmap]
rs10931288	0.84[ASN][1000 genomes]
rs10931289	0.81[ASN][1000 genomes]
rs11674362	1.00[CHB][hapmap]
rs11685426	0.81[ASN][1000 genomes]
rs11688116	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11688157	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11691442	0.81[ASN][1000 genomes]
rs11694265	0.83[EUR][1000 genomes]
rs11897572	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11903296	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12104503	1.00[CHB][hapmap]
rs13013355	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13019491	0.81[ASN][1000 genomes]
rs13392947	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13409829	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13411274	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13418561	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13427277	0.81[EUR][1000 genomes]
rs13430354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13430665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1355519	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1355520	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1398061	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1528233	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1528236	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1609268	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1632282	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16829016	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1706246	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1706254	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1706261	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1706262	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1706273	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1706276	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1728678	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1728680	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1728690	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17367055	0.81[ASN][1000 genomes]
rs17464221	0.81[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17756804	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1912848	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1918902	0.83[EUR][1000 genomes]
rs1983492	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2030976	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2058670	0.81[ASN][1000 genomes]
rs2203117	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2349315	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2882203	1.00[CHB][hapmap]
rs36146505	0.86[ASN][1000 genomes]
rs3771059	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs3771061	0.89[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs3771067	0.88[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs3771076	1.00[CHB][hapmap]
rs3771078	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3821180	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3821184	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4140885	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4667160	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59400383	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60343740	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62172510	0.83[EUR][1000 genomes]
rs62172532	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62172533	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6434219	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6719550	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs67285003	0.81[ASN][1000 genomes]
rs6744012	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6753700	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs696092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs698579	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs698582	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs698583	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs698588	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs698590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs698592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs698593	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72902495	0.81[ASN][1000 genomes]
rs7586970	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7589163	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7591567	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7598858	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs8176479	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs8176498	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176501	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176528	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176541	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176546	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176548	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs8176580	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176583	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8176592	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs840564	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840567	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840569	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840570	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840571	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840572	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840574	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840576	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840577	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840578	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs840583	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840584	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840585	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840586	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840587	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840588	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840589	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840590	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840591	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs840593	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840595	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840596	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840597	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs840609	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs840610	0.87[ASN][1000 genomes]
rs840611	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs840616	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs858744	0.96[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs858756	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs858758	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs858759	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs858919	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs860846	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs860859	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs861458	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs863972	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs865763	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs880890	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs907463	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9288140	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.84[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	nsv949700	chr2:187713412-188361211	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1003061	chr2:187950057-188282330	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1000617	chr2:187950057-188290511	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv533935	chr2:188089148-188284766	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr2:188167800-188172400	Weak transcription	Fetal Heart	heart
2	chr2:188169200-188172200	Weak transcription	HUVEC	blood vessel
3	chr2:188169600-188170200	Enhancers	HUES64 Cell Line	embryonic stem cell

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