Variant report

Variant	rs1393859
Chromosome Location	chr6:54610889-54610890
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10085187	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1018140	0.85[ASN][1000 genomes]
rs1039694	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1039695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10738113	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10807478	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10948832	0.85[ASN][1000 genomes]
rs12210278	0.85[ASN][1000 genomes]
rs12662500	0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1354308	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1395626	0.87[ASN][1000 genomes]
rs1507111	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1572594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827514	0.86[ASN][1000 genomes]
rs1983141	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2297805	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4094928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4106094	0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4712067	1.00[CHB][hapmap]
rs4715471	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4715473	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs542639	0.82[ASN][1000 genomes]
rs58010645	0.90[ASN][1000 genomes]
rs62414317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6459022	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6906010	0.90[ASN][1000 genomes]
rs6907631	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6909103	0.87[CEU][hapmap];0.87[ASN][1000 genomes]
rs6916459	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6934405	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7739195	1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7739425	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7747427	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7759470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7759660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7770733	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7772650	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7773277	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs925053	0.89[ASN][1000 genomes]
rs925054	0.90[ASN][1000 genomes]
rs9296765	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296767	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9464125	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9464130	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9464131	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9474954	0.87[ASN][1000 genomes]
rs9474955	0.83[CHB][hapmap]
rs9474956	0.82[CHB][hapmap]
rs9474976	0.90[CHB][hapmap];0.90[JPT][hapmap];0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474981	1.00[ASN][1000 genomes]
rs9474984	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9474985	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9474986	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs962307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs981683	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9918378	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv885901	chr6:54588069-54635417	Enhancers Weak transcription Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv885902	chr6:54588069-54656673	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	4 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	chr6:54600200-54612400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:54601400-54613800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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