Variant report

Variant	rs9403082
Chromosome Location	chr6:139815808-139815809
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:139809853..139812298-chr6:139813287..139815941,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10872516	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11155070	0.81[AMR][1000 genomes]
rs1468708	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs1468709	0.82[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs2908512	0.93[ASN][1000 genomes]
rs2908513	1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2908517	0.88[ASN][1000 genomes]
rs3010285	0.84[ASN][1000 genomes]
rs3010286	0.82[JPT][hapmap];0.81[YRI][hapmap]
rs4896461	0.81[AMR][1000 genomes]
rs4896463	0.82[JPT][hapmap];0.83[AMR][1000 genomes]
rs4896464	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570344	0.81[AMR][1000 genomes]
rs6916887	0.81[AMR][1000 genomes]
rs6923416	0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs6926031	0.81[AMR][1000 genomes]
rs71543295	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7770257	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9376420	0.82[JPT][hapmap];0.82[AMR][1000 genomes]
rs9376421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376422	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9376423	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389689	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399282	0.82[JPT][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs9403080	0.82[JPT][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes]
rs9403081	0.90[EUR][1000 genomes]
rs9403083	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403084	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9495502	0.90[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1026819	chr6:139813809-139834012	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:139804000-139818200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:139812000-139817600	Weak transcription	HepG2	liver
3	chr6:139815800-139822800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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