Variant report

Variant	rs3824371
Chromosome Location	chr9:17757573-17757574
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13300747	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13301348	1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17454653	0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2383047	0.83[CHB][hapmap];0.83[CHD][hapmap]
rs35004355	0.85[ASN][1000 genomes]
rs35572607	0.88[ASN][1000 genomes]
rs36048313	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3808668	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs3808669	0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.88[ASN][1000 genomes]
rs3808672	0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3808676	0.91[CHB][hapmap];0.82[JPT][hapmap];0.82[MEX][hapmap];0.82[TSI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3808678	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56371897	0.88[ASN][1000 genomes]
rs56374530	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58624127	0.88[ASN][1000 genomes]
rs59114776	0.88[ASN][1000 genomes]
rs60376810	0.88[ASN][1000 genomes]
rs62550981	0.88[ASN][1000 genomes]
rs66488451	0.88[ASN][1000 genomes]
rs7027981	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9406693	0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs9406694	0.86[AFR][1000 genomes]
rs9406695	0.89[AFR][1000 genomes]
rs9406696	0.82[AFR][1000 genomes]
rs9406697	1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9406699	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9406700	0.91[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9406701	0.90[ASN][1000 genomes]
rs9406702	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406703	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406704	0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9406706	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9406707	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406708	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.88[MKK][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406709	0.91[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.82[MKK][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406710	0.81[CHB][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406712	1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406713	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406714	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406715	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406716	0.91[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9406717	0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9406718	0.88[ASN][1000 genomes]
rs9406719	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9406720	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9406721	0.88[ASN][1000 genomes]
rs9406722	0.88[ASN][1000 genomes]
rs9406723	0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.88[ASN][1000 genomes]
rs9406724	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.88[ASN][1000 genomes]
rs9406725	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9406726	0.91[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs9406727	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407833	0.86[AFR][1000 genomes]
rs9407837	0.89[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.82[MEX][hapmap];0.87[MKK][hapmap];0.86[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9407838	0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9407839	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9407849	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407850	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407851	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[ASN][1000 genomes]
rs9407852	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[MKK][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407853	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407854	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9407855	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407856	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.88[MKK][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407857	0.91[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.86[MKK][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407858	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407859	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407860	0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407861	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9407862	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[ASN][1000 genomes]
rs9407863	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407864	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407865	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407866	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407867	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407868	0.88[ASN][1000 genomes]
rs9407869	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9407870	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9407871	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv1033892	chr9:17734224-17757581	Weak transcription Enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases
6	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
7	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	chr9:17754800-17772600	Weak transcription	Hela-S3	cervix
2	chr9:17757400-17757800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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