Variant report

Variant	rs9398873
Chromosome Location	chr6:128861085-128861086
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128860900..128863492-chr6:128890884..128892503,2	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10872332	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11969975	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12176375	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1341588	0.87[ASN][1000 genomes]
rs1417894	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1417895	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1417896	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17055938	1.00[CHB][hapmap]
rs6569532	1.00[AMR][1000 genomes]
rs6569533	0.87[ASN][1000 genomes]
rs6569535	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs6569536	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs6916193	0.87[ASN][1000 genomes]
rs6919106	1.00[ASN][1000 genomes]
rs6920943	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs6923822	1.00[CHB][hapmap]
rs6924111	0.87[ASN][1000 genomes]
rs6935611	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7356823	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7739812	1.00[AMR][1000 genomes]
rs7745291	0.87[ASN][1000 genomes]
rs7751265	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7754729	0.87[ASN][1000 genomes]
rs7760330	0.87[ASN][1000 genomes]
rs7773021	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9321121	1.00[CHB][hapmap]
rs9372893	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9372894	0.87[ASN][1000 genomes]
rs9375570	1.00[CHB][hapmap]
rs9375572	1.00[CHB][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9375575	0.87[ASN][1000 genomes]
rs9375577	1.00[ASN][1000 genomes]
rs9375578	0.87[ASN][1000 genomes]
rs9375579	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9385464	1.00[CHB][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9388638	1.00[CHB][hapmap]
rs9388639	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9388640	1.00[ASN][1000 genomes]
rs9388645	1.00[CHB][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9388646	1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9388647	0.87[ASN][1000 genomes]
rs9388648	0.87[ASN][1000 genomes]
rs9388649	0.87[ASN][1000 genomes]
rs9388650	0.87[ASN][1000 genomes]
rs9388651	0.87[ASN][1000 genomes]
rs9388652	0.87[ASN][1000 genomes]
rs9388654	0.87[ASN][1000 genomes]
rs9398876	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9402051	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9402052	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9402054	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9402055	0.87[ASN][1000 genomes]
rs9402056	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9402057	1.00[CHB][hapmap]
rs9491997	0.87[ASN][1000 genomes]
rs9491999	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs9492001	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs9492003	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr6:128859400-128862200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:128859400-128863000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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