Variant report

Variant	rs62279921
Chromosome Location	chr3:161065441-161065442
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	chr3:161017448..161020301-chr3:161062969..161065681,2	MCF-7	breast:
2	chr3:160936570..160938088-chr3:161064892..161066520,2	MCF-7	breast:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10804790	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1154701	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1382427	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1382428	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1478565	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1600209	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs163328	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs189270	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1993891	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2404340	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28515190	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs336541	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs336543	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs336548	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs336549	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs336567	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336568	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs336569	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336570	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336572	0.90[EUR][1000 genomes]
rs336577	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs336579	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs336580	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs336582	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs336583	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336585	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336586	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs336589	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336590	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336591	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs336593	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs339101	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3849524	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4273380	0.86[EUR][1000 genomes]
rs4350933	0.88[EUR][1000 genomes]
rs4370045	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4493448	0.87[EUR][1000 genomes]
rs455386	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs456611	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs457272	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs459515	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs459697	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4597724	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs460165	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs460508	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs461638	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs462413	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs462514	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs463928	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs464766	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs465985	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs466399	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6441370	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6441371	0.84[AMR][1000 genomes]
rs6441373	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6762645	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6765269	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6775627	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6794601	0.86[EUR][1000 genomes]
rs7611367	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7615592	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7623206	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7629987	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7632797	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7633186	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7638668	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7647327	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7653233	0.90[EUR][1000 genomes]
rs7653361	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9290073	0.85[EUR][1000 genomes]
rs9290074	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs975323	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9790314	0.91[EUR][1000 genomes]
rs9821201	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9846756	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9850455	0.91[EUR][1000 genomes]
rs9863590	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9870059	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9872514	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
4	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161058200-161072200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:161058400-161067000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:161059800-161089200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:161060600-161070200	Weak transcription	Esophagus	oesophagus
5	chr3:161062200-161067400	Weak transcription	Gastric	stomach
6	chr3:161062600-161067600	Weak transcription	HepG2	liver
7	chr3:161063200-161067000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:161063200-161067200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:161063600-161066000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:161064400-161067000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:161064400-161083000	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr3:161065400-161069200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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