Variant report

Variant	rs2681963
Chromosome Location	chr15:54912439-54912440
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	chr15:54910155..54912492-chr15:54912771..54915484,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1053864	0.89[JPT][hapmap]
rs11631067	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11631070	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12101359	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101374	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101382	1.00[CEU][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101884	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17237774	0.92[CEU][hapmap];0.89[JPT][hapmap]
rs1961635	0.87[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];0.88[MEX][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2303406	0.89[JPT][hapmap]
rs28391429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28430508	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28704578	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57292695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6493691	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6493692	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6493693	0.87[ASW][hapmap];1.00[CEU][hapmap];0.82[GIH][hapmap];0.89[JPT][hapmap];0.83[LWK][hapmap];0.81[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7165350	1.00[CEU][hapmap];0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7175154	0.87[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];0.83[LWK][hapmap];0.88[MEX][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7178466	1.00[CEU][hapmap];0.89[JPT][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73403839	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73403848	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73403857	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8033128	0.81[YRI][hapmap]
rs8042622	1.00[CEU][hapmap];0.89[JPT][hapmap];0.87[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9920139	0.89[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817539	chr15:54132584-55095235	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1038660	chr15:54756184-55039913	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv904236	chr15:54820897-54912439	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1039548	chr15:54856965-54914519	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv904237	chr15:54888537-54927484	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv569509	chr15:54888537-54932716	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv569518	chr15:54898631-54954864	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
8	nsv1043600	chr15:54910593-55010156	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54900000-54920600	Weak transcription	Aorta	Aorta
2	chr15:54906400-54916000	Weak transcription	Fetal Lung	lung
3	chr15:54907400-54915800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr15:54910000-54913000	Enhancers	Fetal Intestine Small	intestine
5	chr15:54911400-54912800	Weak transcription	Fetal Intestine Large	intestine

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