Variant report

Variant	rs3106712
Chromosome Location	chr2:180460246-180460247
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	chr2:180459993..180460542-chr2:180511399..180512209,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10048645	0.86[JPT][hapmap]
rs10169561	0.86[JPT][hapmap]
rs11687634	0.91[JPT][hapmap]
rs11692794	0.86[JPT][hapmap]
rs12693196	0.86[JPT][hapmap]
rs12693197	0.86[JPT][hapmap]
rs13000199	0.86[JPT][hapmap]
rs13004211	0.81[JPT][hapmap]
rs13012946	0.86[JPT][hapmap]
rs13026689	0.86[JPT][hapmap]
rs13035781	0.91[JPT][hapmap]
rs13411084	0.86[JPT][hapmap]
rs13411180	0.86[JPT][hapmap]
rs1515274	0.81[JPT][hapmap]
rs1515315	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1515317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1533385	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1554101	0.90[JPT][hapmap]
rs1606816	0.91[JPT][hapmap]
rs16866810	0.81[JPT][hapmap]
rs16866832	0.86[JPT][hapmap]
rs16866857	0.91[JPT][hapmap]
rs16866865	0.81[JPT][hapmap]
rs16866871	0.81[JPT][hapmap]
rs17818050	0.81[JPT][hapmap]
rs1877943	0.91[JPT][hapmap]
rs2090219	0.84[YRI][hapmap]
rs2138195	0.90[JPT][hapmap]
rs2176061	0.82[JPT][hapmap]
rs2222031	0.91[JPT][hapmap]
rs2887110	0.86[JPT][hapmap]
rs3106704	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs3106705	0.83[AFR][1000 genomes]
rs3106710	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3106713	0.81[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs3106714	0.81[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs3112959	0.96[YRI][hapmap]
rs3112964	0.88[YRI][hapmap]
rs3112969	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs4511690	0.86[JPT][hapmap]
rs4894115	0.90[JPT][hapmap]
rs6707527	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs6717795	0.91[JPT][hapmap]
rs7425514	0.90[JPT][hapmap]
rs7558351	0.91[JPT][hapmap]
rs7593595	0.86[JPT][hapmap]
rs7601398	0.90[JPT][hapmap]
rs872158	0.90[JPT][hapmap]
rs872159	0.91[JPT][hapmap]
rs872160	0.91[JPT][hapmap]
rs951425	0.90[JPT][hapmap]
rs979901	0.91[JPT][hapmap]
rs988290	0.86[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875471	chr2:180448523-180469778	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180435200-180461000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:180456800-180460400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr2:180457800-180460600	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr2:180458000-180460800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr2:180459200-180461400	Enhancers	Osteobl	bone
6	chr2:180459800-180461200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:180460000-180461600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr2:180460200-180460600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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