Variant report

Variant	rs3924054
Chromosome Location	chr3:100247165-100247166
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	chr3:100212615..100215029-chr3:100245878..100248398,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10936276	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs11719592	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs12634317	0.83[CHB][hapmap]
rs12636452	0.83[CHB][hapmap];0.88[CHD][hapmap];0.81[LWK][hapmap];0.81[MKK][hapmap]
rs1471375	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs1520650	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs1531772	0.85[JPT][hapmap]
rs1676340	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs16842463	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs1718275	0.86[CHB][hapmap];0.88[JPT][hapmap]
rs2460719	0.88[JPT][hapmap]
rs4928048	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs4928110	0.83[CHB][hapmap];0.88[CHD][hapmap]
rs4928111	0.83[CHB][hapmap];0.90[YRI][hapmap]
rs4928112	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs61549238	0.81[AMR][1000 genomes]
rs6441316	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs6441328	0.83[CHB][hapmap]
rs6441329	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs6799879	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs6799882	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs6799992	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs6802787	0.83[CHB][hapmap]
rs6807804	0.83[CHB][hapmap]
rs6808426	0.83[CHB][hapmap]
rs73141183	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7426414	0.87[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7429277	0.83[CHB][hapmap]
rs7431846	0.83[CHB][hapmap];0.90[YRI][hapmap]
rs7433589	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs7622658	0.83[CHB][hapmap]
rs7631877	0.83[CHB][hapmap]
rs7645690	0.83[CHB][hapmap]
rs7645700	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs7647499	0.83[CHB][hapmap]
rs900235	0.88[JPT][hapmap]
rs9819246	0.80[CHB][hapmap]
rs9843498	0.83[CHB][hapmap];0.85[CHD][hapmap]
rs9855549	0.83[CHB][hapmap]
rs9865411	0.83[CHB][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	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100238000-100252600	Weak transcription	Fetal Intestine Small	intestine
2	chr3:100238000-100265400	Weak transcription	HSMMtube	muscle
3	chr3:100241000-100299800	Weak transcription	Fetal Muscle Leg	muscle
4	chr3:100241200-100251800	Weak transcription	Hela-S3	cervix
5	chr3:100242000-100253200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr3:100242400-100265000	Weak transcription	HepG2	liver
7	chr3:100242400-100268000	Weak transcription	Ovary	ovary
8	chr3:100244400-100247200	Enhancers	Liver	Liver
9	chr3:100244600-100261400	Weak transcription	Fetal Lung	lung
10	chr3:100244800-100253000	Weak transcription	Esophagus	oesophagus
11	chr3:100244800-100255400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:100244800-100257800	Weak transcription	Spleen	Spleen
13	chr3:100244800-100267000	Weak transcription	HSMM	muscle
14	chr3:100245200-100252000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:100245200-100252200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:100245200-100252200	Weak transcription	Aorta	Aorta
17	chr3:100245200-100253200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:100245400-100247200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:100245400-100247200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:100245400-100252200	Weak transcription	Fetal Stomach	stomach
21	chr3:100245400-100252400	Weak transcription	Adipose Nuclei	Adipose
22	chr3:100245400-100255800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:100245600-100254600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:100245800-100253200	Weak transcription	HMEC	breast
25	chr3:100246200-100252000	Weak transcription	NHEK	skin
26	chr3:100246400-100252000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:100246600-100249400	Enhancers	Placenta Amnion	Placenta Amnion
28	chr3:100246600-100250800	Weak transcription	NHDF-Ad	bronchial
29	chr3:100246600-100251000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:100246600-100251400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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