Variant report

Variant	rs41305339
Chromosome Location	chr9:17787220-17787221
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10491540	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10810850	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963249	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10963254	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10963258	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963261	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963262	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963263	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963264	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963265	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963267	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963268	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10963270	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10963272	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10963273	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10963274	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10963275	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10963276	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10963278	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10963284	0.87[AMR][1000 genomes]
rs10963288	0.82[AMR][1000 genomes]
rs10963289	0.85[AMR][1000 genomes]
rs1114790	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12000241	0.87[AMR][1000 genomes]
rs12005953	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12006023	0.87[AMR][1000 genomes]
rs12006056	0.87[AMR][1000 genomes]
rs12377526	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12378332	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12379450	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13284953	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13290434	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13291009	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13291415	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13291891	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34106908	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34609165	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34701669	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35728688	0.87[AMR][1000 genomes]
rs35911294	0.84[EUR][1000 genomes]
rs36045574	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4287033	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4394493	0.87[AMR][1000 genomes]
rs4416918	0.87[AMR][1000 genomes]
rs4487880	0.84[AMR][1000 genomes]
rs62549699	0.81[EUR][1000 genomes]
rs62549703	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7044550	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7859882	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892675	chr9:17694823-17790526	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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
6	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	chr9:17786000-17787600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr9:17787000-17787800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:17787000-17800400	Weak transcription	Fetal Brain Female	brain
5	chr9:17787200-17787800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:17787200-17791000	Weak transcription	Fetal Brain Male	brain

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