Variant report

Variant	rs12005953
Chromosome Location	chr9:17777086-17777087
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	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10810850	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963249	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10963254	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10963258	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10963261	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963262	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963263	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963264	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963265	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10963267	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10963268	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10963270	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10963272	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10963273	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10963274	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10963275	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10963276	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10963278	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10963284	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10963288	0.82[EUR][1000 genomes]
rs10963289	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1114790	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12000241	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12006023	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12006056	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12377526	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12378332	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12379450	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13284953	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13290434	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13291009	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13291415	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13291891	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34106908	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34609165	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34701669	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35728688	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35911294	0.88[EUR][1000 genomes]
rs36045574	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41305339	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4287033	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4394493	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4416918	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4487880	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62549699	0.84[EUR][1000 genomes]
rs62549703	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7044550	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7859882	0.83[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:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17764600-17782800	Weak transcription	Gastric	stomach
2	chr9:17776800-17786200	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links