Variant report

Variant	rs9677678
Chromosome Location	chr2:53709791-53709792
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10177230	1.00[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11125497	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11125498	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11125499	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11125500	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11674306	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11680345	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11886009	0.87[EUR][1000 genomes]
rs11888392	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11888396	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11888464	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11888509	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11888557	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11890024	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11894955	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12470776	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12613505	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12616103	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12619813	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12999083	0.89[EUR][1000 genomes]
rs1402899	0.90[EUR][1000 genomes]
rs1494021	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1494022	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1521924	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1521925	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1521927	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1521928	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1521932	0.88[CEU][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap];0.81[MEX][hapmap];0.87[TSI][hapmap];0.90[EUR][1000 genomes]
rs17044757	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1879716	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1879717	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2357353	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2357354	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2357355	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2357356	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2357357	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2357358	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35090707	0.85[EUR][1000 genomes]
rs35278733	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4330141	0.88[EUR][1000 genomes]
rs4365499	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4467313	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4566397	0.89[EUR][1000 genomes]
rs4671404	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4671405	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4672432	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4672433	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4672434	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4672435	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60013509	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60179496	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6419624	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6545347	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6545348	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66734139	0.89[EUR][1000 genomes]
rs6708142	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6708820	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6718796	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6719172	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6747348	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6748128	0.88[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6748135	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6750492	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6759201	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7564138	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7574122	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7576429	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7588880	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7602931	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7603213	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7603358	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs882249	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs903230	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs909050	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs926014	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs931539	1.00[YRI][hapmap]
rs995151	0.85[AMR][1000 genomes];0.92[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	nsv1002145	chr2:53387912-53832213	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv535718	chr2:53387912-53832213	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv997401	chr2:53515629-53863347	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv3383918	chr2:53585059-53710179	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv999571	chr2:53690538-53775723	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1012754	chr2:53690538-53785037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv457873	chr2:53701324-53785037	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv582009	chr2:53701324-53785037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:53707200-53711400	Weak transcription	Hela-S3	cervix
2	chr2:53708600-53712000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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