Variant report

Variant	rs4141716
Chromosome Location	chr9:17794009-17794010
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:17531556..17532244-chr9:17793906..17794864,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10963282	0.84[AMR][1000 genomes]
rs10963283	0.83[AMR][1000 genomes]
rs10963285	0.84[AMR][1000 genomes]
rs11791520	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11791576	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11792712	0.85[AMR][1000 genomes]
rs12552857	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs12552903	0.83[AMR][1000 genomes]
rs12555445	0.83[AMR][1000 genomes]
rs13288654	0.83[AMR][1000 genomes]
rs2182082	0.81[CEU][hapmap];0.82[AFR][1000 genomes]
rs2209426	0.91[CEU][hapmap];0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2209427	0.91[CEU][hapmap];0.86[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2209429	0.83[AFR][1000 genomes]
rs2224953	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs2274216	0.91[CEU][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs34349189	0.83[AMR][1000 genomes]
rs35956180	0.84[AMR][1000 genomes]
rs36003385	0.84[AMR][1000 genomes]
rs3808664	0.87[JPT][hapmap]
rs4961595	0.91[CEU][hapmap];0.86[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4961596	0.83[AMR][1000 genomes]
rs4961597	0.84[AMR][1000 genomes]
rs4961598	0.82[AMR][1000 genomes]
rs4961599	0.83[AMR][1000 genomes]
rs6475171	0.84[EUR][1000 genomes]
rs6475172	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7020594	0.89[CEU][hapmap]
rs7023218	0.83[AMR][1000 genomes]
rs7026318	0.84[AMR][1000 genomes]
rs7029798	0.87[JPT][hapmap]
rs7032090	0.81[CEU][hapmap];0.84[AFR][1000 genomes]
rs7039352	0.83[AMR][1000 genomes]
rs7040307	0.83[AMR][1000 genomes]
rs72691895	0.83[AMR][1000 genomes]
rs7847005	0.83[AMR][1000 genomes]
rs7850617	0.83[AMR][1000 genomes]
rs7851224	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7858932	0.83[CEU][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7860861	0.86[JPT][hapmap]
rs7861909	0.83[AMR][1000 genomes]
rs7863227	0.84[AMR][1000 genomes]
rs7863603	0.82[AMR][1000 genomes]
rs7868359	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs9406698	0.81[EUR][1000 genomes]
rs9407845	0.82[EUR][1000 genomes]
rs9407846	0.91[CEU][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613706	chr9:17718918-18090934	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv613707	chr9:17720175-18070475	Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv613708	chr9:17720175-18072085	Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1034673	chr9:17739006-17916606	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1023089	chr9:17748811-17919574	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17784800-17799400	Weak transcription	Hela-S3	cervix
2	chr9:17787000-17800400	Weak transcription	Fetal Brain Female	brain
3	chr9:17788600-17805400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:17792800-17795400	Weak transcription	Brain Germinal Matrix	brain
5	chr9:17793400-17794200	Enhancers	Fetal Brain Male	brain
6	chr9:17794000-17795600	Weak transcription	Aorta	Aorta

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