Variant report

Variant	rs12572858
Chromosome Location	chr10:50570205-50570206
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	chr10:50568721..50570423-chr10:50572921..50575797,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10508913	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12572851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17009950	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17009953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17176872	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17176921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17176977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17177005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17783577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17783607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs3849153	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4012237	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41301105	0.93[EUR][1000 genomes]
rs57455400	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61848624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61848626	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848627	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848634	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848635	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848637	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848639	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61848642	0.81[EUR][1000 genomes]
rs61848644	0.81[EUR][1000 genomes]
rs61848646	0.93[EUR][1000 genomes]
rs61850964	0.91[EUR][1000 genomes]
rs7088781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73311930	0.85[EUR][1000 genomes]
rs7915692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7916121	0.86[EUR][1000 genomes];1.00[ASN][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	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50567200-50571600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr10:50567600-50572000	Enhancers	Pancreas	Pancrea
3	chr10:50568000-50570600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr10:50568800-50573400	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr10:50569000-50571000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr10:50569400-50570600	Bivalent Enhancer	Fetal Muscle Leg	muscle
7	chr10:50569400-50575600	Weak transcription	Right Atrium	heart
8	chr10:50569600-50570400	Weak transcription	Left Ventricle	heart
9	chr10:50569600-50571600	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr10:50569600-50575800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr10:50569600-50577200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:50569800-50572000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:50569800-50572200	Enhancers	GM12878-XiMat	blood
14	chr10:50570000-50571000	Weak transcription	Lung	lung
15	chr10:50570000-50571200	Enhancers	Primary B cells from peripheral blood	blood
16	chr10:50570200-50572400	Enhancers	HepG2	liver
17	chr10:50570200-50575600	Weak transcription	Right Ventricle	heart

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