Variant report

Variant	rs58402712
Chromosome Location	chr6:4243708-4243709
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10080414	0.88[EUR][1000 genomes]
rs10223886	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10428864	0.89[EUR][1000 genomes]
rs1072903	0.88[EUR][1000 genomes]
rs11961149	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11970375	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11970430	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1591412	0.91[EUR][1000 genomes]
rs17500205	0.94[EUR][1000 genomes]
rs17538963	0.83[EUR][1000 genomes]
rs17565229	0.95[EUR][1000 genomes]
rs1832060	0.91[EUR][1000 genomes]
rs2210761	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2210762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2326473	0.91[EUR][1000 genomes]
rs4255019	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4256473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4317452	0.83[EUR][1000 genomes]
rs4354197	0.83[EUR][1000 genomes]
rs4443539	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4475361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4526241	0.91[EUR][1000 genomes]
rs4596533	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4629733	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4959937	0.88[EUR][1000 genomes]
rs4959938	0.88[EUR][1000 genomes]
rs57509474	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59706955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60023788	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61604146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6597046	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6597047	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6597048	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6913742	0.89[EUR][1000 genomes]
rs6916181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6922330	0.90[EUR][1000 genomes]
rs6931784	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6934489	0.90[EUR][1000 genomes]
rs6934652	0.90[EUR][1000 genomes]
rs73356806	0.83[EUR][1000 genomes]
rs73358820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73358823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73358854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73360930	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73360933	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73360945	0.99[EUR][1000 genomes]
rs7754298	0.95[EUR][1000 genomes]
rs7759565	0.88[EUR][1000 genomes]
rs7763657	0.94[EUR][1000 genomes]
rs7763789	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7765457	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs913405	0.94[EUR][1000 genomes]
rs9328227	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9328229	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9328230	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9328231	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9328232	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9328233	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9328236	0.99[EUR][1000 genomes]
rs9392032	0.90[EUR][1000 genomes]
rs9392578	0.86[EUR][1000 genomes]
rs9392580	0.88[EUR][1000 genomes]
rs9405228	0.90[EUR][1000 genomes]
rs9502148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9502149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9502150	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9502151	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9502152	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9502153	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9502154	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9502157	0.99[EUR][1000 genomes]
rs9502158	0.99[EUR][1000 genomes]
rs9502159	0.99[EUR][1000 genomes]
rs9502160	0.98[EUR][1000 genomes]
rs9502161	0.93[EUR][1000 genomes]
rs9502163	0.94[EUR][1000 genomes]
rs9503948	0.83[EUR][1000 genomes]
rs9503953	0.83[EUR][1000 genomes]
rs9503982	0.91[EUR][1000 genomes]
rs9503983	0.91[EUR][1000 genomes]
rs9503984	0.91[EUR][1000 genomes]
rs9503985	0.89[EUR][1000 genomes]
rs9503993	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9503994	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9503995	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9503996	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9504005	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9504006	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9504007	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9504008	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9504009	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9504010	0.98[EUR][1000 genomes]
rs9504022	0.99[EUR][1000 genomes]
rs9504025	0.94[EUR][1000 genomes]
rs9504033	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	esv2422457	chr6:4100333-4377396	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv600861	chr6:4238488-4469641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv462618	chr6:4238488-4472587	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv600862	chr6:4238488-4472587	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 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	chr6:4243400-4243800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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