Variant report

Variant	rs3798392
Chromosome Location	chr6:117731664-117731665
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10484302	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13194436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196657	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13199989	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13202073	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13202720	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13203726	0.85[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13205893	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13206903	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs13211635	0.83[EUR][1000 genomes]
rs13212382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13216390	0.83[EUR][1000 genomes]
rs13216400	0.83[EUR][1000 genomes]
rs13216409	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs17079150	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17090953	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17574630	1.00[AFR][1000 genomes]
rs2243375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2243377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2243380	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2273603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34059111	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34131577	0.83[EUR][1000 genomes]
rs34231660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34258179	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34280338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34900812	0.80[AMR][1000 genomes]
rs34959842	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35476086	0.82[EUR][1000 genomes]
rs35562167	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35837924	1.00[AFR][1000 genomes]
rs35874725	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36111427	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3777974	0.82[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3777975	0.80[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3777976	0.85[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3798387	0.85[CHB][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes]
rs3798391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71554882	0.80[AMR][1000 genomes]
rs71570847	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71570849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71570850	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs71570852	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71570854	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9372479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374654	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs9387467	0.83[EUR][1000 genomes]
rs9387468	0.83[EUR][1000 genomes]
rs9387469	0.83[EUR][1000 genomes]
rs9387472	1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs9387473	0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9398458	0.80[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9401005	0.80[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][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	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	esv2763593	chr6:117727550-117741495	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1032651	chr6:117727550-117741495	Enhancers Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1025551	chr6:117730592-117741495	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117692600-117735800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:117723200-117737600	Weak transcription	Lung	lung
3	chr6:117729000-117732600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:117731000-117732200	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr6:117731400-117732600	Weak transcription	HSMM	muscle
6	chr6:117731600-117732000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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