Variant report

Variant	rs2009641
Chromosome Location	chr3:85877174-85877175
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-VGLL3-5	chr3:85877151-85877200	ENSG00000241648.1

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11923789	1.00[CEU][hapmap]
rs1448606	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2875492	1.00[CEU][hapmap]
rs4519715	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57177092	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58800887	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60819488	0.83[EUR][1000 genomes]
rs61327946	1.00[EUR][1000 genomes]
rs61371129	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61678625	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6770050	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6792733	1.00[CEU][hapmap];0.83[AFR][1000 genomes]
rs6804056	1.00[CEU][hapmap]
rs6804410	1.00[CEU][hapmap]
rs73843505	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73843506	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73843507	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73843508	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73843510	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73843512	1.00[EUR][1000 genomes]
rs73845636	0.81[AFR][1000 genomes]
rs73845640	0.82[AFR][1000 genomes]
rs73845645	0.83[AFR][1000 genomes]
rs73845646	0.83[AFR][1000 genomes]
rs73845647	0.81[AFR][1000 genomes]
rs73845664	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845665	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845669	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845688	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73845689	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7612504	1.00[CEU][hapmap]
rs7613828	1.00[CEU][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7615807	1.00[CEU][hapmap]
rs7616471	1.00[CEU][hapmap]
rs7626235	1.00[CEU][hapmap]
rs7650537	0.90[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9819299	1.00[CEU][hapmap]

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	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv877106	chr3:85814620-86006210	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv877107	chr3:85814620-86037162	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv877108	chr3:85870363-86037162	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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