Variant report

Variant	rs425792
Chromosome Location	chr20:52845330-52845331
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52844972..52848737-chr20:53072489..53075619,3	MCF-7	breast:
2	chr1:121484850..121486543-chr20:52844002..52846741,2	MCF-7	breast:
3	chr20:52843581..52850062-chr20:52850195..52855343,9	MCF-7	breast:
4	chr20:52838765..52840477-chr20:52844593..52846830,2	K562	blood:
5	chr20:52843780..52845745-chr20:52884098..52886121,2	MCF-7	breast:
6	chr20:52844235..52847493-chr20:52876743..52879429,3	MCF-7	breast:
7	chr20:52838977..52840544-chr20:52845330..52847377,2	K562	blood:

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

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

rs_ID	r²[population]
rs2756032	0.96[AFR][1000 genomes]
rs366424	0.96[AFR][1000 genomes]
rs367149	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs368604	0.96[AFR][1000 genomes]
rs371012	0.96[AFR][1000 genomes]
rs372987	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs374623	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs377448	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs378666	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs378668	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs380980	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs383890	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs389806	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs393866	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs396957	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs404705	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs406389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs414058	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs415230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs416263	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs416724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs418191	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs422615	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs422818	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs423338	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs424195	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs429350	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs432270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs437970	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs446835	0.96[AFR][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:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52829400-52847400	Weak transcription	Aorta	Aorta
2	chr20:52829600-52847600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr20:52833000-52845400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr20:52835600-52845800	Weak transcription	HSMM	muscle
5	chr20:52835600-52846000	Weak transcription	HSMMtube	muscle
6	chr20:52838600-52846000	Weak transcription	Fetal Muscle Leg	muscle
7	chr20:52839600-52845400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr20:52840600-52849000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr20:52840800-52849000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr20:52841000-52851000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr20:52845200-52846000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr20:52845200-52846200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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