Variant report

Variant	rs10898539
Chromosome Location	chr11:86564624-86564625
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:45819288..45820814-chr11:86563285..86565381,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10751141	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10898536	0.84[ASN][1000 genomes]
rs10898540	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10898541	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10898542	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234827	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11234832	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11234833	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11234834	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11822136	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12283389	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12283538	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12290301	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12365857	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12798785	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1939109	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2005192	0.85[ASN][1000 genomes]
rs2105586	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2555537	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2555538	0.83[EUR][1000 genomes]
rs2555539	0.85[ASN][1000 genomes]
rs2555540	0.85[ASN][1000 genomes]
rs2555542	0.82[ASN][1000 genomes]
rs2845684	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2845685	0.86[ASN][1000 genomes]
rs2845689	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2845690	0.85[ASN][1000 genomes]
rs4567492	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4594022	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61906681	0.82[ASN][1000 genomes]
rs6592317	0.86[ASN][1000 genomes]
rs7104692	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7107731	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv975959	chr11:86534725-86568919	Strong transcription Enhancers Genic enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1836220	chr11:86542005-86573310	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86537200-86580600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr11:86543200-86582600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:86549600-86581400	Weak transcription	Ovary	ovary
4	chr11:86549800-86576400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr11:86550000-86575200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr11:86562400-86567200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr11:86562600-86585800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr11:86563200-86575200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:86563200-86598800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr11:86563400-86566200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr11:86563400-86575400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr11:86563600-86567400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr11:86564000-86575200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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