Variant report

Variant	rs10472340
Chromosome Location	chr5:40883096-40883097
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:40879793..40882550-chr5:40882872..40884630,2	K562	blood:

Extended variants
information (count: 133 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs10035225	0.80[ASN][1000 genomes]
rs10035592	0.91[ASN][1000 genomes]
rs10035621	0.99[ASN][1000 genomes]
rs10041257	0.99[ASN][1000 genomes]
rs10041319	0.90[ASN][1000 genomes]
rs10046046	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10054615	0.87[ASN][1000 genomes]
rs10054948	0.87[ASN][1000 genomes]
rs10056708	0.87[ASN][1000 genomes]
rs10058274	0.89[ASN][1000 genomes]
rs10059679	0.83[ASN][1000 genomes]
rs10060965	0.91[ASN][1000 genomes]
rs10063892	0.99[ASN][1000 genomes]
rs10066341	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10072099	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10072128	0.87[ASN][1000 genomes]
rs10072214	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10073246	0.80[ASN][1000 genomes]
rs10076486	0.90[ASN][1000 genomes]
rs10076663	0.82[ASN][1000 genomes]
rs10077786	0.87[ASN][1000 genomes]
rs10078706	0.87[ASN][1000 genomes]
rs10079875	0.87[ASN][1000 genomes]
rs10080165	0.87[ASN][1000 genomes]
rs10472342	0.87[ASN][1000 genomes]
rs10472344	0.87[ASN][1000 genomes]
rs10473219	0.87[ASN][1000 genomes]
rs10473220	0.87[ASN][1000 genomes]
rs10473221	0.86[ASN][1000 genomes]
rs10473227	0.91[ASN][1000 genomes]
rs10473228	0.91[ASN][1000 genomes]
rs10512750	0.91[ASN][1000 genomes]
rs10941526	0.91[ASN][1000 genomes]
rs10941527	0.90[ASN][1000 genomes]
rs1120308	0.91[ASN][1000 genomes]
rs11739731	0.91[ASN][1000 genomes]
rs11741315	0.91[ASN][1000 genomes]
rs11746650	0.99[ASN][1000 genomes]
rs11748194	0.87[ASN][1000 genomes]
rs12109051	0.89[ASN][1000 genomes]
rs12652909	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12657195	0.91[ASN][1000 genomes]
rs12658133	0.90[ASN][1000 genomes]
rs12659571	0.80[ASN][1000 genomes]
rs13353861	0.89[ASN][1000 genomes]
rs13353862	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13353865	0.90[ASN][1000 genomes]
rs13354307	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13354561	0.87[ASN][1000 genomes]
rs13355045	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13360188	0.87[ASN][1000 genomes]
rs1393155	0.87[ASN][1000 genomes]
rs1393156	0.85[ASN][1000 genomes]
rs1645519	0.87[ASN][1000 genomes]
rs16870407	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16870425	0.90[ASN][1000 genomes]
rs16870434	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16870491	0.91[ASN][1000 genomes]
rs1697939	0.87[ASN][1000 genomes]
rs1697940	0.86[ASN][1000 genomes]
rs1697941	0.87[ASN][1000 genomes]
rs1697942	0.87[ASN][1000 genomes]
rs17175825	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1827363	0.87[ASN][1000 genomes]
rs1827366	0.83[ASN][1000 genomes]
rs1827367	0.82[ASN][1000 genomes]
rs188932	0.82[ASN][1000 genomes]
rs2081153	0.90[ASN][1000 genomes]
rs2329430	0.91[ASN][1000 genomes]
rs2329431	0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2432155	0.86[ASN][1000 genomes]
rs2455307	0.91[ASN][1000 genomes]
rs2455308	0.91[ASN][1000 genomes]
rs28718806	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2876848	0.91[ASN][1000 genomes]
rs28770573	0.91[ASN][1000 genomes]
rs28831497	0.90[ASN][1000 genomes]
rs28834109	0.90[ASN][1000 genomes]
rs28860325	0.91[ASN][1000 genomes]
rs28870511	0.91[ASN][1000 genomes]
rs34888872	0.91[ASN][1000 genomes]
rs373411	0.87[ASN][1000 genomes]
rs3792640	0.90[ASN][1000 genomes]
rs3792641	0.90[ASN][1000 genomes]
rs4277953	0.90[ASN][1000 genomes]
rs4277954	0.91[ASN][1000 genomes]
rs4461680	0.91[ASN][1000 genomes]
rs4559041	0.91[ASN][1000 genomes]
rs567165	0.87[ASN][1000 genomes]
rs619491	0.87[ASN][1000 genomes]
rs62357601	0.84[ASN][1000 genomes]
rs62357603	0.84[ASN][1000 genomes]
rs62357605	0.86[ASN][1000 genomes]
rs62357612	0.90[ASN][1000 genomes]
rs62357636	0.99[ASN][1000 genomes]
rs62357641	0.99[ASN][1000 genomes]
rs62358575	0.91[ASN][1000 genomes]
rs72748000	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72749504	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72749508	0.90[ASN][1000 genomes]
rs72749510	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72749514	0.99[ASN][1000 genomes]
rs72749521	0.80[ASN][1000 genomes]
rs72749526	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7445411	0.85[ASN][1000 genomes]
rs7701643	0.91[ASN][1000 genomes]
rs7701662	0.80[ASN][1000 genomes]
rs7701871	0.91[ASN][1000 genomes]
rs7704691	0.91[ASN][1000 genomes]
rs7706776	0.91[ASN][1000 genomes]
rs7711745	0.87[ASN][1000 genomes]
rs7717388	0.87[ASN][1000 genomes]
rs7717391	0.87[ASN][1000 genomes]
rs7717457	0.87[ASN][1000 genomes]
rs7717794	0.91[ASN][1000 genomes]
rs7724262	0.91[ASN][1000 genomes]
rs7731772	0.87[ASN][1000 genomes]
rs7731944	0.87[ASN][1000 genomes]
rs7733440	0.87[ASN][1000 genomes]
rs9292790	0.88[ASN][1000 genomes]
rs9292793	0.91[ASN][1000 genomes]
rs9292794	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9292795	0.91[ASN][1000 genomes]
rs972007	0.91[ASN][1000 genomes]
rs972008	0.91[ASN][1000 genomes]
rs9885543	0.91[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	nsv880438	chr5:40753877-40900717	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	160 gene(s)	inside rSNPs	diseases
2	esv3444044	chr5:40860244-40888483	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv881467	chr5:40869802-41008650	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv2757114	chr5:40874078-41009282	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv2759341	chr5:40874078-41009282	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv823055	chr5:40875708-41004839	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	esv35077	chr5:40875843-41000671	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40882400-40884800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:40883000-40883400	Enhancers	Fetal Intestine Large	intestine
3	chr5:40883000-40883400	Enhancers	Fetal Intestine Small	intestine
4	chr5:40883000-40883600	Active TSS	Duodenum Mucosa	Duodenum

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