Variant report

Variant	rs17406471
Chromosome Location	chr1:86505174-86505175
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10493787	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs11801529	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs11802445	0.95[ASN][1000 genomes]
rs12402809	1.00[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];0.81[LWK][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12408108	0.92[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12564004	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12564959	0.88[EUR][1000 genomes]
rs12566718	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12566940	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12567495	0.92[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12567549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12743345	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs12744220	0.95[ASN][1000 genomes]
rs12752769	0.95[ASN][1000 genomes]
rs1408666	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs1408667	1.00[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1408668	0.86[CEU][hapmap]
rs1698735	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs17405393	0.93[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17406450	1.00[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17406755	1.00[ASW][hapmap];0.93[CEU][hapmap];0.80[GIH][hapmap];0.87[LWK][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17414470	0.85[YRI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17415366	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2390052	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs4522024	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs473232	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs474106	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs477862	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs485816	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs4912460	0.93[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4912461	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs494796	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs514185	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs517786	0.91[EUR][1000 genomes]
rs540159	0.87[EUR][1000 genomes]
rs541936	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs565860	0.93[CEU][hapmap];0.92[EUR][1000 genomes]
rs582622	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs589343	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs61783511	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61800687	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61800722	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61800724	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61800727	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61800729	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61800732	0.92[EUR][1000 genomes]
rs61800734	0.89[EUR][1000 genomes]
rs61802172	0.91[EUR][1000 genomes]
rs629683	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs633604	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs641712	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs658313	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs679734	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs695051	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs72716135	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72716141	0.94[EUR][1000 genomes]
rs72716150	0.89[EUR][1000 genomes]
rs72716152	0.89[EUR][1000 genomes]
rs7414042	0.86[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7514100	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7552025	0.90[CHB][hapmap];0.86[JPT][hapmap]

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	nsv817212	chr1:86127851-86658426	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv546722	chr1:86278315-86891073	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
3	nsv462406	chr1:86412177-86509996	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv546757	chr1:86412177-86509996	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1010312	chr1:86469730-86686426	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv525678	chr1:86487914-86549498	Enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1012467	chr1:86494935-86686426	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86494200-86506800	Weak transcription	Fetal Lung	lung

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