Variant report

Variant	rs6762439
Chromosome Location	chr3:111493516-111493517
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	chr3:111485439..111489234-chr3:111490972..111493959,3	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10934102	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10934103	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs13071304	0.98[EUR][1000 genomes]
rs13085147	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13090883	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17423699	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17424287	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs34307743	0.90[EUR][1000 genomes]
rs34444935	0.90[EUR][1000 genomes]
rs3922703	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3922705	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4234403	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4234405	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4277659	1.00[YRI][hapmap]
rs4308247	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4349472	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4373040	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4405880	0.98[EUR][1000 genomes]
rs4416359	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4429600	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4438630	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4464420	1.00[YRI][hapmap]
rs4546124	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4603931	1.00[YRI][hapmap]
rs4642091	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4645114	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4682058	0.88[CEU][hapmap];0.98[EUR][1000 genomes]
rs4682059	0.80[CEU][hapmap];0.98[EUR][1000 genomes]
rs4682060	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4682061	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4682304	0.88[CEU][hapmap];0.98[EUR][1000 genomes]
rs4682306	0.89[CEU][hapmap];0.98[EUR][1000 genomes]
rs4682307	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4682308	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4682309	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4682311	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4682315	0.96[EUR][1000 genomes]
rs6438005	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66499316	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6763624	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6768626	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6777990	0.96[EUR][1000 genomes]
rs6780845	0.89[CEU][hapmap];0.98[EUR][1000 genomes]
rs6782894	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6786443	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6791845	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6804906	0.98[EUR][1000 genomes]
rs6807045	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs68097220	1.00[EUR][1000 genomes]
rs7632963	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7633037	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7637178	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7640556	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7641533	0.89[CEU][hapmap];0.98[EUR][1000 genomes]
rs9288929	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9631450	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9850851	0.89[CEU][hapmap];0.98[EUR][1000 genomes]
rs9968124	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111487800-111521000	Weak transcription	Gastric	stomach
2	chr3:111488000-111501400	Weak transcription	Psoas Muscle	Psoas
3	chr3:111488400-111496800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:111489000-111495200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:111489400-111500600	Weak transcription	Fetal Lung	lung
6	chr3:111492400-111494200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr3:111493000-111493600	Enhancers	Liver	Liver
8	chr3:111493000-111496000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:111493200-111494200	Strong transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:111493400-111493600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:111493400-111500800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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