Variant report

Variant	rs6539879
Chromosome Location	chr12:85403304-85403305
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1031190	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12301980	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12304556	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1404871	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1494500	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1494501	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1525548	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs168615	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1690835	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1852148	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1973816	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2056638	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2660449	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2660454	0.84[EUR][1000 genomes]
rs2660455	0.84[EUR][1000 genomes]
rs2660459	0.83[EUR][1000 genomes]
rs2708496	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2708498	0.84[EUR][1000 genomes]
rs6539881	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7132596	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7133817	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7302312	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7316900	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7954110	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7962411	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7962577	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[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	nsv899377	chr12:85157346-85629241	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1040452	chr12:85179586-85747907	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv1792335	chr12:85321249-86003609	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 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	chr12:85400200-85404000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr12:85402400-85408600	Weak transcription	Hela-S3	cervix
3	chr12:85402400-85409800	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr12:85402400-85410200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr12:85403000-85409000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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