Variant report

Variant	rs6040560
Chromosome Location	chr20:11329559-11329560
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10048850	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16992379	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16992385	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2092643	0.97[EUR][1000 genomes]
rs2207102	0.88[EUR][1000 genomes]
rs2207111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4813983	0.96[ASN][1000 genomes]
rs56880002	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56916303	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57343506	0.88[EUR][1000 genomes]
rs57494012	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57530621	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57628024	0.88[EUR][1000 genomes]
rs58745127	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60059631	1.00[EUR][1000 genomes]
rs6033098	0.88[EUR][1000 genomes]
rs6033105	0.84[EUR][1000 genomes]
rs6033115	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60399139	0.94[EUR][1000 genomes]
rs6040519	0.88[EUR][1000 genomes]
rs6040525	0.88[EUR][1000 genomes]
rs6040535	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040544	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040547	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040549	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040550	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040552	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6040561	0.95[AFR][1000 genomes]
rs60517966	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6074282	0.82[AFR][1000 genomes]
rs61045178	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6108901	0.96[ASN][1000 genomes]
rs6108902	0.96[ASN][1000 genomes]
rs61252470	0.96[ASN][1000 genomes]
rs73243915	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73243929	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73243934	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73243975	1.00[EUR][1000 genomes]
rs73243981	1.00[EUR][1000 genomes]
rs73244000	1.00[EUR][1000 genomes]
rs73245616	0.97[EUR][1000 genomes]
rs73245627	0.97[EUR][1000 genomes]
rs73261557	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs982209	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065969	chr20:10850562-11464172	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv544181	chr20:10850562-11464172	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv585415	chr20:11134907-11383327	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:11323600-11331000	Weak transcription	Psoas Muscle	Psoas
2	chr20:11326000-11329600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr20:11329000-11332000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr20:11329200-11329600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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