Variant report

Variant	rs6091858
Chromosome Location	chr20:52981316-52981317
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:75348194..75350018-chr20:52980164..52981715,2	MCF-7	breast:
2	chr20:52979804..52981716-chr20:52983200..52985662,2	MCF-7	breast:
3	chr20:52976917..52979046-chr20:52979757..52981463,2	MCF-7	breast:
4	chr20:52979917..52982366-chr20:52988469..52990410,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1321464	0.81[EUR][1000 genomes]
rs1321468	0.81[EUR][1000 genomes]
rs1358806	0.80[EUR][1000 genomes]
rs1539515	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16999560	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17224616	0.93[EUR][1000 genomes]
rs17224715	0.94[EUR][1000 genomes]
rs17317237	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1923118	0.80[EUR][1000 genomes]
rs2126675	0.82[EUR][1000 genomes]
rs2126677	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2870329	0.80[EUR][1000 genomes]
rs55865213	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56339826	0.98[EUR][1000 genomes]
rs6013997	0.80[EUR][1000 genomes]
rs6014005	0.80[EUR][1000 genomes]
rs6023193	0.80[EUR][1000 genomes]
rs6091860	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6097931	0.94[EUR][1000 genomes]
rs6097942	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097943	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6097944	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6097950	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6097957	0.80[EUR][1000 genomes]
rs6097964	0.80[EUR][1000 genomes]
rs6097967	0.80[EUR][1000 genomes]
rs73143321	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73143323	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145242	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145250	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145257	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145263	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145271	0.88[EUR][1000 genomes]
rs73145273	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73145277	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73147267	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
3	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv527610	chr20:52980099-52984431	Weak transcription Enhancers	Chromatin interactive region	5 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	chr20:52976600-52983400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr20:52976600-52985200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr20:52977600-52985200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr20:52977800-52985200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr20:52979200-52984800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr20:52979800-52984600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr20:52980600-52982000	Enhancers	Liver	Liver

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