Variant report

Variant	rs6016901
Chromosome Location	chr20:41457909-41457910
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs28600713	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6016892	1.00[AMR][1000 genomes]
rs6016894	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6016895	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6016899	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6030482	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030483	1.00[AMR][1000 genomes]
rs6030485	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030487	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030488	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030495	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030497	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030500	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6030514	1.00[AMR][1000 genomes]
rs6093738	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6103046	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6103050	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6103051	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6103055	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6103056	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6103061	0.85[AMR][1000 genomes]
rs731609	1.00[AMR][1000 genomes]
rs7363793	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915994	chr20:41180550-41464507	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1058990	chr20:41289969-41543912	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv544277	chr20:41289969-41543912	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1063450	chr20:41409901-41880620	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1060690	chr20:41413369-41851935	Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1066088	chr20:41417205-42060036	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41457200-41458000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr20:41457800-41464400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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