Variant report

Variant	rs9498516
Chromosome Location	chr6:101558949-101558950
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:101555646..101557341-chr6:101557571..101560206,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10214542	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12111331	0.91[AMR][1000 genomes]
rs1337383	0.91[AMR][1000 genomes]
rs17061291	0.91[AMR][1000 genomes]
rs28376888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58873286	1.00[AMR][1000 genomes]
rs59307136	1.00[AMR][1000 genomes]
rs9485431	0.91[AMR][1000 genomes]
rs9485435	0.91[AMR][1000 genomes]
rs9485445	1.00[AMR][1000 genomes]
rs9485446	1.00[AMR][1000 genomes]
rs9485450	1.00[AMR][1000 genomes]
rs9485454	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9485464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9485466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498436	0.91[AMR][1000 genomes]
rs9498446	0.91[AMR][1000 genomes]
rs9498447	1.00[AMR][1000 genomes]
rs9498473	1.00[AMR][1000 genomes]
rs9498475	1.00[AMR][1000 genomes]
rs9498476	1.00[AMR][1000 genomes]
rs9498479	1.00[AMR][1000 genomes]
rs9498483	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498486	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498493	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9498512	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1019213	chr6:101225650-101623140	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv538391	chr6:101225650-101623140	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer 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	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101549000-101563000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:101558400-101559200	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr6:101558800-101559000	Enhancers	Primary hematopoietic stem cells	blood

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