Variant report

Variant	rs399959
Chromosome Location	chr21:17366145-17366146
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:17359620..17362061-chr21:17365249..17368112,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11088561	0.86[ASN][1000 genomes]
rs12482831	0.83[ASN][1000 genomes]
rs12483563	0.85[ASN][1000 genomes]
rs12483594	0.85[ASN][1000 genomes]
rs12483611	0.85[ASN][1000 genomes]
rs1740137	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1893382	0.85[ASN][1000 genomes]
rs1893383	0.85[ASN][1000 genomes]
rs2000700	0.81[ASN][1000 genomes]
rs2205453	0.93[ASN][1000 genomes]
rs2404032	0.93[ASN][1000 genomes]
rs2823528	0.81[ASN][1000 genomes]
rs2823533	0.92[ASN][1000 genomes]
rs2823534	0.93[ASN][1000 genomes]
rs2823535	0.93[ASN][1000 genomes]
rs2823536	0.93[ASN][1000 genomes]
rs2823537	0.93[ASN][1000 genomes]
rs2823538	0.93[ASN][1000 genomes]
rs2823539	0.93[ASN][1000 genomes]
rs2823540	0.93[ASN][1000 genomes]
rs2823542	0.93[ASN][1000 genomes]
rs2823543	0.93[ASN][1000 genomes]
rs2823545	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2823546	0.83[ASN][1000 genomes]
rs2823549	0.85[ASN][1000 genomes]
rs2823550	0.85[ASN][1000 genomes]
rs2896726	0.93[ASN][1000 genomes]
rs366613	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs368760	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs375736	0.87[ASN][1000 genomes]
rs387709	0.87[ASN][1000 genomes]
rs388509	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs390503	0.93[ASN][1000 genomes]
rs400590	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs405703	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs407058	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs412399	0.92[ASN][1000 genomes]
rs417411	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs419827	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs419867	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs420519	0.93[ASN][1000 genomes]
rs420571	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs420806	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs422504	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs433721	1.00[ASN][1000 genomes]
rs435166	0.93[ASN][1000 genomes]
rs444574	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs447456	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs447842	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs451121	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs453844	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs457319	0.85[ASN][1000 genomes]
rs459355	0.85[ASN][1000 genomes]
rs56037345	0.82[ASN][1000 genomes]
rs56110468	0.85[ASN][1000 genomes]
rs6517682	0.85[ASN][1000 genomes]
rs727131	0.81[ASN][1000 genomes]
rs7277086	0.84[ASN][1000 genomes]
rs7279935	0.91[ASN][1000 genomes]
rs73894724	0.81[ASN][1000 genomes]
rs9979920	0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064664	chr21:17336936-17405756	Enhancers Active TSS Flanking Active TSS Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:17364800-17368400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr21:17365000-17367400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr21:17365200-17367800	Weak transcription	Osteobl	bone
4	chr21:17365600-17367600	Weak transcription	Muscle Satellite Cultured Cells	--

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