Variant report

Variant	rs859513
Chromosome Location	chr7:39057032-39057033
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr7:39056090-39057036	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:39056885..39058530-chr7:39059051..39061943,3	K562	blood:
2	chr7:39052158..39055296-chr7:39055387..39058245,4	K562	blood:
3	chr7:39056516..39058385-chr7:39059051..39061295,2	K562	blood:

Variant related genes	Relation type
POU6F2-AS2	TF binding region
ENSG00000106536	Chromatin interaction
ENSG00000233854	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10224345	1.00[ASN][1000 genomes]
rs10234489	1.00[ASN][1000 genomes]
rs10234710	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10235824	1.00[ASN][1000 genomes]
rs10248402	1.00[ASN][1000 genomes]
rs10254999	1.00[ASN][1000 genomes]
rs10269214	1.00[ASN][1000 genomes]
rs10277485	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1229057	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1405987	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1525790	1.00[ASN][1000 genomes]
rs1527953	1.00[ASN][1000 genomes]
rs1527957	1.00[ASN][1000 genomes]
rs1534415	1.00[ASN][1000 genomes]
rs1881131	1.00[ASN][1000 genomes]
rs1950001	1.00[ASN][1000 genomes]
rs2140910	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2893570	1.00[ASN][1000 genomes]
rs4294102	1.00[ASN][1000 genomes]
rs4452709	1.00[ASN][1000 genomes]
rs4499996	1.00[ASN][1000 genomes]
rs4499997	1.00[ASN][1000 genomes]
rs4507668	1.00[ASN][1000 genomes]
rs4588755	1.00[ASN][1000 genomes]
rs4723826	1.00[ASN][1000 genomes]
rs4723830	1.00[ASN][1000 genomes]
rs6955794	1.00[ASN][1000 genomes]
rs6971923	1.00[ASN][1000 genomes]
rs702820	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73122445	1.00[ASN][1000 genomes]
rs73126431	1.00[ASN][1000 genomes]
rs7778249	1.00[ASN][1000 genomes]
rs7778299	1.00[ASN][1000 genomes]
rs7787883	1.00[ASN][1000 genomes]
rs859542	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs859545	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs859546	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs859547	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9986786	1.00[ASN][1000 genomes]
rs9987012	1.00[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	nsv830967	chr7:38913837-39069253	Flanking Bivalent TSS/Enh Enhancers 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	4 gene(s)	inside rSNPs	diseases
2	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv887967	chr7:39009307-39090698	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39054200-39062000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:39056200-39058000	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr7:39056400-39057200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr7:39056400-39057400	Enhancers	Placenta	Placenta
5	chr7:39056400-39058000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr7:39056600-39057200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr7:39056600-39057200	Enhancers	Placenta Amnion	Placenta Amnion
8	chr7:39056800-39057200	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr7:39057000-39057200	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr7:39057000-39057400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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