Variant report

Variant	rs1039495
Chromosome Location	chr6:54551145-54551146
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:54547491..54552528-chr6:54710025..54715322,6	MCF-7	breast:
2	chr6:54546361..54548104-chr6:54550298..54552036,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1039496	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10948839	0.81[ASN][1000 genomes]
rs10948840	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11966577	0.81[ASN][1000 genomes]
rs12525539	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12527077	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12527080	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12527124	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12528270	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12528881	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12529275	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12662465	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1395624	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1395627	0.85[ASN][1000 genomes]
rs1648200	0.81[EUR][1000 genomes]
rs1648201	0.94[EUR][1000 genomes]
rs16869519	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16885649	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16885656	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16885668	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16885735	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16885760	0.85[ASN][1000 genomes]
rs16885866	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs16885948	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1745079	0.81[EUR][1000 genomes]
rs1951693	0.83[EUR][1000 genomes]
rs1976539	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2048112	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2894821	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34659714	0.81[ASN][1000 genomes]
rs34752465	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4712065	0.85[ASN][1000 genomes]
rs4712066	0.85[ASN][1000 genomes]
rs4712068	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4715466	0.81[ASN][1000 genomes]
rs4715468	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4715470	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4994100	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58302712	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60501416	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs608873	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61375854	0.84[ASN][1000 genomes]
rs6915244	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73440097	0.85[ASN][1000 genomes]
rs73444113	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73444116	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73444125	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73446030	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73446036	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73446043	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7740110	0.85[ASN][1000 genomes]
rs7751908	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7761021	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9349726	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9370323	0.83[EUR][1000 genomes]
rs9474957	0.86[EUR][1000 genomes]
rs950077	0.81[ASN][1000 genomes]
rs953896	0.81[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	esv1813954	chr6:54518364-54557296	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv1813136	chr6:54550530-54557193	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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