Variant report

Variant	rs28654935
Chromosome Location	chr16:48250218-48250219
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10163354	0.93[ASN][1000 genomes]
rs10163462	0.93[ASN][1000 genomes]
rs10521167	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11076564	0.85[EUR][1000 genomes]
rs11859911	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11861031	0.93[ASN][1000 genomes]
rs11861348	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11861379	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11863133	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11863233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11863236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11863325	0.93[ASN][1000 genomes]
rs11863414	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11865596	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11866225	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11866251	0.93[ASN][1000 genomes]
rs11866312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11866529	0.86[ASN][1000 genomes]
rs13331031	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13332304	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13334052	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13336264	0.80[ASN][1000 genomes]
rs13336542	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13336625	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13336759	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13337955	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13338105	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16945916	0.93[ASN][1000 genomes]
rs16945917	0.93[ASN][1000 genomes]
rs16945919	0.93[ASN][1000 genomes]
rs16945972	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16945974	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16945988	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16945990	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16946006	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16946011	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16946014	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16946122	0.85[EUR][1000 genomes]
rs17743256	0.93[ASN][1000 genomes]
rs2129245	0.85[EUR][1000 genomes]
rs28376623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28503414	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28515165	0.85[EUR][1000 genomes]
rs28605399	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28626252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28684834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28696036	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28842015	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28849445	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41280939	0.93[ASN][1000 genomes]
rs4325548	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4340327	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs5017203	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57912486	0.93[ASN][1000 genomes]
rs58938063	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60431412	0.96[EUR][1000 genomes]
rs62058521	0.93[ASN][1000 genomes]
rs62058522	0.93[ASN][1000 genomes]
rs62058526	0.93[ASN][1000 genomes]
rs62058528	0.93[ASN][1000 genomes]
rs6500339	0.85[ASN][1000 genomes]
rs7184452	0.87[EUR][1000 genomes]
rs7184831	0.93[ASN][1000 genomes]
rs7186982	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7187166	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7187233	0.93[ASN][1000 genomes]
rs7191181	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7191844	0.93[ASN][1000 genomes]
rs7202089	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7203378	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7203432	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7203695	0.93[ASN][1000 genomes]
rs7206909	0.93[ASN][1000 genomes]
rs73540901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73542903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73542904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73546434	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73546437	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73546439	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73555628	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73555630	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73555643	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7359477	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs74018298	0.85[ASN][1000 genomes]
rs74018300	0.93[ASN][1000 genomes]
rs8043685	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8043751	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8046814	0.86[ASN][1000 genomes]
rs8047091	0.86[ASN][1000 genomes]
rs8047397	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8049398	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8050120	0.93[ASN][1000 genomes]
rs8051016	0.86[ASN][1000 genomes]
rs8051205	0.86[ASN][1000 genomes]
rs8051546	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8051852	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8054117	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8054444	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8055128	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8056100	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8056143	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8056692	0.83[EUR][1000 genomes]
rs8057475	0.86[ASN][1000 genomes]
rs8058396	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8060696	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8060722	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8062407	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs957881	0.93[ASN][1000 genomes]
rs9926206	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9932328	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9932850	0.86[ASN][1000 genomes]
rs9934833	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9938414	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1059259	chr16:48113396-48304404	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv542916	chr16:48113396-48304404	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr16:48250000-48250600	Enhancers	Brain Substantia Nigra	brain
2	chr16:48250000-48250800	Enhancers	Brain Anterior Caudate	brain
3	chr16:48250200-48250400	Bivalent Enhancer	HepG2	liver

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