Variant report

Variant	rs2836580
Chromosome Location	chr21:40010784-40010785
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:40006499..40008943-chr21:40009530..40012188,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs17194186	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17194207	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17194214	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17285455	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2212597	0.87[ASN][1000 genomes]
rs2212932	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2836550	0.90[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2836566	0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2836578	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28465589	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28705162	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55651068	0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56159937	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56871124	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58009060	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59304931	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60393496	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60914381	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62217496	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs973105	0.81[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9974074	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9974176	0.86[ASN][1000 genomes]
rs9977881	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9980524	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065541	chr21:40009959-40024976	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1057719	chr21:40009959-40025433	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1058663	chr21:40009959-40031681	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40003800-40014400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr21:40008800-40010800	Weak transcription	Aorta	Aorta
3	chr21:40008800-40011600	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr21:40009200-40014600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr21:40010400-40011400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr21:40010400-40011600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr21:40010600-40011600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr21:40010600-40012200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr21:40010600-40015200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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