Variant report

Variant	rs6082839
Chromosome Location	chr20:22769594-22769595
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10735149	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11087397	0.87[ASN][1000 genomes]
rs11697574	0.94[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11699126	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11699192	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11906177	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11906209	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11906222	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11906944	0.93[ASN][1000 genomes]
rs13042234	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13043348	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16984461	0.93[ASN][1000 genomes]
rs17681000	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17681083	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2103766	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2143903	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2143904	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2179857	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2179858	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2207169	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2404492	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34023416	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35049078	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35465115	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4414746	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55650525	0.93[ASN][1000 genomes]
rs6075949	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6075950	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6075951	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6075953	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6075954	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6075955	0.93[ASN][1000 genomes]
rs6075956	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6075962	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6075963	0.87[ASN][1000 genomes]
rs6075964	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6075965	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6075966	0.85[ASN][1000 genomes]
rs6082813	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082815	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082816	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082817	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082818	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082819	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082822	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082825	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6082827	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082828	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082829	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082830	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082832	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6082833	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082836	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6082837	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6082838	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6082840	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6082841	0.87[ASN][1000 genomes]
rs6082842	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7274509	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7274843	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7353078	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73900571	0.89[ASN][1000 genomes]
rs8116991	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8119685	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8122403	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8122474	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8123509	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs926744	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[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	nsv544213	chr20:22722740-22791150	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv912816	chr20:22757960-23062927	Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv520547	chr20:22767280-22771404	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats	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	chr20:22758000-22772000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr20:22764800-22770200	Weak transcription	Right Atrium	heart
3	chr20:22768800-22770000	Weak transcription	Placenta	Placenta
4	chr20:22769000-22770200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr20:22769000-22770400	Weak transcription	Aorta	Aorta
6	chr20:22769200-22770200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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