Variant report

Variant	rs293403
Chromosome Location	chr4:69603951-69603952
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10017727	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11249508	0.93[EUR][1000 genomes]
rs11930531	0.95[EUR][1000 genomes]
rs12645539	0.93[EUR][1000 genomes]
rs1588708	0.99[EUR][1000 genomes]
rs1670747	0.96[EUR][1000 genomes]
rs1818490	0.80[EUR][1000 genomes]
rs1828698	0.93[EUR][1000 genomes]
rs1828704	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1828705	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1828706	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1828707	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1849536	0.93[EUR][1000 genomes]
rs1877609	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1877610	0.97[EUR][1000 genomes]
rs1877611	0.97[EUR][1000 genomes]
rs1913321	0.83[EUR][1000 genomes]
rs1913323	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28836845	0.98[ASN][1000 genomes]
rs28879427	0.87[EUR][1000 genomes]
rs293402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs293404	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs293405	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3100643	0.96[EUR][1000 genomes]
rs3100644	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3100652	0.81[EUR][1000 genomes]
rs3100653	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3113331	0.80[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs3113332	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs364616	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs372723	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs372868	0.84[EUR][1000 genomes]
rs374041	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs377586	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs380168	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs381060	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs384038	1.00[ASN][1000 genomes]
rs385121	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs387611	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs389715	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs390624	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs390650	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs392779	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs393038	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs395918	0.94[EUR][1000 genomes]
rs397678	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs398458	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs398783	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs401343	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs402247	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs403552	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs405499	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs406668	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs406961	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs407182	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs407751	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs409976	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs414859	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs415876	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs416480	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs416593	0.95[EUR][1000 genomes]
rs416637	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs416814	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs416866	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs419780	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs423497	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4235087	0.95[EUR][1000 genomes]
rs424254	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs425561	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs425760	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs426050	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs427743	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs428529	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs429247	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs429550	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs430638	0.84[EUR][1000 genomes]
rs431253	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs434190	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs434271	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs434462	0.98[EUR][1000 genomes]
rs436876	0.98[ASN][1000 genomes]
rs442082	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs442412	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs445730	0.98[EUR][1000 genomes]
rs446358	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs446919	0.98[EUR][1000 genomes]
rs449162	0.98[EUR][1000 genomes]
rs4694324	0.94[EUR][1000 genomes]
rs60694884	0.92[EUR][1000 genomes]
rs61634109	0.83[EUR][1000 genomes]
rs6600842	0.94[EUR][1000 genomes]
rs66850244	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs68060708	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6814072	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6833127	0.88[EUR][1000 genomes]
rs6833138	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6842738	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6854648	0.90[EUR][1000 genomes]
rs72636508	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72636509	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72636510	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72636512	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73826110	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7670472	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7675032	0.84[EUR][1000 genomes]
rs7684016	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9993883	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757061	chr4:69178920-69631668	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv870075	chr4:69218674-69608683	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1005513	chr4:69446718-69890307	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	esv2763366	chr4:69592847-69661427	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1013885	chr4:69592847-69667996	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv829961	chr4:69592847-69695467	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv594579	chr4:69597175-69665970	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1014042	chr4:69599853-69667996	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:69602200-69604000	Weak transcription	Gastric	stomach
2	chr4:69602800-69604000	Weak transcription	Stomach Mucosa	stomach
3	chr4:69602800-69613400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:69603800-69604000	Enhancers	Fetal Kidney	kidney
5	chr4:69603800-69604600	ZNF genes & repeats	HepG2	liver

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