Variant report

Variant	rs9843115
Chromosome Location	chr3:69939173-69939174
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69937914..69940791-chr3:69955380..69957093,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11920509	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11921396	1.00[AMR][1000 genomes]
rs11924822	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13314417	1.00[ASW][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13315220	1.00[EUR][1000 genomes]
rs13316652	1.00[ASW][hapmap];0.86[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13321948	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13325667	0.82[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006549	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006569	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006572	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006575	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28754428	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35773003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41370746	1.00[ASW][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41440046	1.00[ASW][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs9818328	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819125	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824148	0.87[ASW][hapmap];1.00[TSI][hapmap]
rs9827219	1.00[ASW][hapmap];0.94[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9827735	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9832459	1.00[TSI][hapmap]
rs9833046	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9833501	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9836115	1.00[TSI][hapmap]
rs9837171	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9838445	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842586	1.00[EUR][1000 genomes]
rs9845314	1.00[EUR][1000 genomes]
rs9849776	1.00[EUR][1000 genomes]
rs9850565	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859340	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9874322	1.00[TSI][hapmap]
rs9874957	1.00[TSI][hapmap]
rs9880541	1.00[TSI][hapmap]

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	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69917200-69951200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:69920800-69950800	Weak transcription	Ovary	ovary
3	chr3:69927600-69939200	Weak transcription	Stomach Mucosa	stomach
4	chr3:69928600-69942000	Weak transcription	Gastric	stomach
5	chr3:69928600-69950800	Weak transcription	Pancreas	Pancrea
6	chr3:69928600-69951000	Weak transcription	Lung	lung
7	chr3:69934200-69939400	Weak transcription	Hela-S3	cervix
8	chr3:69934600-69942600	Weak transcription	Adipose Nuclei	Adipose
9	chr3:69934600-69943600	Weak transcription	Left Ventricle	heart
10	chr3:69935400-69950800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr3:69936000-69939200	Weak transcription	A549	lung
12	chr3:69936200-69941000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:69938000-69939200	Enhancers	Psoas Muscle	Psoas
14	chr3:69938200-69939800	Enhancers	NHDF-Ad	bronchial
15	chr3:69938200-69941600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:69938400-69939400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr3:69938400-69940800	Enhancers	HUVEC	blood vessel
18	chr3:69938400-69941400	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:69938400-69941800	Weak transcription	Fetal Heart	heart
20	chr3:69938400-69945000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr3:69938600-69941600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:69938600-69941800	Weak transcription	Brain Hippocampus Middle	brain
23	chr3:69938600-69942200	Weak transcription	Brain Substantia Nigra	brain
24	chr3:69938600-69942400	Weak transcription	Brain Anterior Caudate	brain
25	chr3:69938600-69943400	Weak transcription	Brain Angular Gyrus	brain
26	chr3:69938600-69944400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr3:69938600-69948400	Weak transcription	Aorta	Aorta
28	chr3:69938600-69949400	Weak transcription	Colon Smooth Muscle	Colon
29	chr3:69938600-69950800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr3:69939000-69939200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
31	chr3:69939000-69939600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr3:69939000-69939600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:69939000-69939600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr3:69939000-69939600	Enhancers	Right Ventricle	heart
35	chr3:69939000-69939600	Enhancers	NH-A	brain
36	chr3:69939000-69939800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:69939000-69940200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr3:69939000-69940200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr3:69939000-69940600	Enhancers	NHLF	lung

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