Variant report

Variant	rs429549
Chromosome Location	chr20:14483582-14483583
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1998103	0.88[AFR][1000 genomes]
rs1998104	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs2327859	0.90[AFR][1000 genomes]
rs2423789	0.93[YRI][hapmap];0.95[AFR][1000 genomes]
rs2423795	0.93[YRI][hapmap];0.90[AFR][1000 genomes]
rs2423796	0.90[AFR][1000 genomes]
rs2423797	0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs2423798	0.94[YRI][hapmap];0.83[AFR][1000 genomes]
rs2423799	0.86[AFR][1000 genomes]
rs2423801	0.88[YRI][hapmap];0.86[AFR][1000 genomes]
rs365225	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs365792	0.80[YRI][hapmap]
rs373874	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs376577	0.84[YRI][hapmap]
rs376972	0.91[AFR][1000 genomes]
rs384498	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs391092	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs398372	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs405620	0.95[AFR][1000 genomes]
rs405993	0.84[YRI][hapmap];0.95[AFR][1000 genomes]
rs406307	0.95[AFR][1000 genomes]
rs406441	0.95[AFR][1000 genomes]
rs407908	0.87[AFR][1000 genomes]
rs408176	0.91[AFR][1000 genomes]
rs412345	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs416436	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs420299	0.95[AFR][1000 genomes]
rs429495	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs430452	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs436322	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs453013	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs475471	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs6079476	0.94[YRI][hapmap];0.85[AFR][1000 genomes]
rs6110316	0.94[YRI][hapmap];0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055499	chr20:14224873-14848061	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1064721	chr20:14384931-14648223	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv833926	chr20:14410153-14572336	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv585442	chr20:14420556-14485947	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1059770	chr20:14432394-14549781	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv544187	chr20:14432394-14549781	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv529577	chr20:14434373-14799157	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1064008	chr20:14477895-14540691	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 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	chr20:14462600-14488400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr20:14479600-14484400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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