Variant report

Variant	rs10520135
Chromosome Location	chr15:39829939-39829940
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:39828971..39831634-chr15:39872319..39876371,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1004739	0.87[CEU][hapmap]
rs1004740	0.87[CEU][hapmap]
rs10520137	0.87[CEU][hapmap]
rs11070220	0.87[CEU][hapmap]
rs11070222	0.87[CEU][hapmap]
rs11070223	0.87[CEU][hapmap]
rs11070225	0.87[CEU][hapmap]
rs1134485	0.87[CEU][hapmap]
rs11630406	0.87[CEU][hapmap]
rs11631570	0.87[CEU][hapmap]
rs11632879	0.87[CEU][hapmap]
rs11633974	0.87[CEU][hapmap]
rs11635103	0.87[CEU][hapmap]
rs11638041	0.87[CEU][hapmap]
rs11638500	0.87[CEU][hapmap]
rs11852591	0.87[CEU][hapmap]
rs11852649	0.87[CEU][hapmap]
rs11854797	0.87[CEU][hapmap]
rs11856294	0.87[CEU][hapmap]
rs11856971	0.85[CEU][hapmap]
rs11857819	0.85[CEU][hapmap]
rs11857927	0.87[CEU][hapmap]
rs12908846	0.87[CEU][hapmap]
rs12912082	0.87[CEU][hapmap]
rs16969386	0.87[CEU][hapmap]
rs16969410	0.87[CEU][hapmap]
rs16969445	0.85[CEU][hapmap]
rs16969459	0.87[CEU][hapmap]
rs16969460	0.87[CEU][hapmap]
rs16969475	0.87[CEU][hapmap]
rs16969478	0.87[CEU][hapmap]
rs1876853	0.87[CEU][hapmap]
rs2228261	0.87[CEU][hapmap]
rs2292305	0.87[CEU][hapmap]
rs2411313	0.87[CEU][hapmap]
rs2412409	0.87[CEU][hapmap]
rs2412413	0.87[CEU][hapmap]
rs2412415	0.87[CEU][hapmap]
rs2412417	0.86[CEU][hapmap]
rs2412419	0.87[CEU][hapmap]
rs2898686	0.87[CEU][hapmap]
rs2898687	0.87[CEU][hapmap]
rs2898688	0.87[CEU][hapmap]
rs3784390	0.87[CEU][hapmap]
rs4349120	0.86[CEU][hapmap]
rs4476147	0.87[CEU][hapmap]
rs4547308	0.87[CEU][hapmap]
rs4583211	0.85[CEU][hapmap]
rs7162070	0.87[CEU][hapmap]
rs7162781	0.87[CEU][hapmap]
rs7167184	0.82[CEU][hapmap]
rs7168755	0.87[CEU][hapmap]
rs7169478	0.87[CEU][hapmap]
rs7169574	0.87[CEU][hapmap]
rs753599	0.87[CEU][hapmap]
rs8029602	0.87[CEU][hapmap]
rs8032035	0.87[CEU][hapmap]
rs884584	0.87[CEU][hapmap]

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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39823600-39835400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:39826000-39833200	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr15:39826400-39831200	Weak transcription	Ovary	ovary

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