Variant report

Variant	rs1436639
Chromosome Location	chr3:86995124-86995125
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:86994080..86996241-chr3:87005417..87008390,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13074432	0.96[CEU][hapmap];0.87[GIH][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13324964	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[GIH][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13356	0.94[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.84[MKK][hapmap];0.85[TSI][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1436640	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2340475	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6784619	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6789975	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9834197	0.94[AMR][1000 genomes];0.97[EUR][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	nsv519148	chr3:86831077-86995124	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv534036	chr3:86967129-87283600	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86980600-86995600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:86986000-86998200	Weak transcription	A549	lung
3	chr3:86986800-87014400	Weak transcription	Aorta	Aorta
4	chr3:86987200-86997800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:86987400-87007400	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:86987800-86996600	Strong transcription	Placenta	Placenta
7	chr3:86987800-86999600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:86988200-87007600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr3:86988200-87013400	Weak transcription	Ovary	ovary
10	chr3:86988600-87000000	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:86989000-86997800	Strong transcription	HSMM	muscle
12	chr3:86989200-86996000	Strong transcription	Osteobl	bone
13	chr3:86989200-86997400	Weak transcription	Adipose Nuclei	Adipose
14	chr3:86989200-86999600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:86990800-86995800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:86991000-86997400	Strong transcription	Muscle Satellite Cultured Cells	--
17	chr3:86992200-86995200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:86992400-86995200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:86992600-86998200	Strong transcription	NH-A	brain
20	chr3:86992800-86995200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:86993000-86996400	Strong transcription	NHLF	lung
22	chr3:86993600-86997800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:86993800-86995400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr3:86993800-86998000	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr3:86993800-87014200	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:86994000-87013200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr3:86994200-86995400	Strong transcription	NHDF-Ad	bronchial
28	chr3:86994200-86995800	Weak transcription	HSMMtube	muscle
29	chr3:86994200-86996000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr3:86994200-86997000	Weak transcription	Hela-S3	cervix
31	chr3:86994200-86997200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr3:86994400-86998600	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr3:86994800-87010400	Weak transcription	Fetal Lung	lung
34	chr3:86995000-86995600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:86995000-86995800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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