Variant report

Variant	rs6082828
Chromosome Location	chr20:22758386-22758387
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10735149	0.89[EUR][1000 genomes]
rs11697574	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11699126	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11699192	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11906177	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11906209	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11906222	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11906944	0.81[ASN][1000 genomes]
rs13042234	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13043348	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16984461	0.81[ASN][1000 genomes]
rs17681000	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17681083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2103766	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2143903	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2143904	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2179857	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2179858	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2207169	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2404492	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34023416	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35049078	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35465115	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4414746	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55650525	0.81[ASN][1000 genomes]
rs6075949	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6075951	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6075953	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6075954	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6075955	0.81[ASN][1000 genomes]
rs6075956	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6075962	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6075964	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6075965	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082813	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082815	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082816	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082817	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082818	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082819	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082822	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082825	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6082827	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082829	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082830	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082832	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6082833	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082836	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6082837	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082838	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082839	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082840	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6082842	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7274509	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7274843	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7353078	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73900571	0.84[ASN][1000 genomes]
rs8116991	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8119685	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8122403	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8122474	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8123509	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs926744	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061382	chr20:22706041-22763200	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	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
3	nsv528221	chr20:22732749-22767280	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv979482	chr20:22751722-22766987	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	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

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:22757200-22760600	Weak transcription	Aorta	Aorta
2	chr20:22757600-22758600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr20:22757800-22760000	Weak transcription	A549	lung
4	chr20:22757800-22765400	Weak transcription	NHEK	skin
5	chr20:22757800-22765600	Weak transcription	HMEC	breast
6	chr20:22758000-22760800	Weak transcription	Placenta	Placenta
7	chr20:22758000-22772000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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