Variant report

Variant	rs429350
Chromosome Location	chr20:52848793-52848794
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52846290..52849195-chr20:53053763..53055378,2	MCF-7	breast:
2	chr20:52843581..52850062-chr20:52850195..52855343,9	MCF-7	breast:
3	chr20:52846960..52850669-chr20:52882090..52885757,4	MCF-7	breast:
4	chr20:52848398..52850983-chr20:52861832..52863422,2	MCF-7	breast:
5	chr20:52846307..52849581-chr20:52862205..52864323,3	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs2756032	1.00[AFR][1000 genomes]
rs366424	1.00[AFR][1000 genomes]
rs367149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs368604	1.00[AFR][1000 genomes]
rs371012	1.00[AFR][1000 genomes]
rs372987	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs374623	1.00[EUR][1000 genomes]
rs377448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs378666	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs378668	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs380980	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs383890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs389806	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs393866	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs396957	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs404705	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs406389	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs414058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs415230	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs416263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs416724	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs418191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs422615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs422818	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs423338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs424195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs425792	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs432270	0.96[AFR][1000 genomes]
rs437970	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs446835	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6013929	1.00[EUR][1000 genomes]
rs6013931	1.00[EUR][1000 genomes]
rs6013932	1.00[EUR][1000 genomes]
rs6013934	1.00[EUR][1000 genomes]
rs6023039	1.00[EUR][1000 genomes]
rs6023040	1.00[EUR][1000 genomes]
rs6023041	1.00[EUR][1000 genomes]
rs6023046	1.00[EUR][1000 genomes]
rs6023047	1.00[EUR][1000 genomes]
rs6127144	1.00[EUR][1000 genomes]
rs73285988	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52840600-52849000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr20:52840800-52849000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr20:52841000-52851000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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