Variant report

Variant	rs17012800
Chromosome Location	chr3:23235424-23235425
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23233775..23235858-chr3:23243837..23245911,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182247	Chromatin interaction
ENSG00000233153	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10510536	1.00[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11926494	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11927173	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13314285	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1495130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17012829	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];0.90[YRI][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1908475	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2017065	0.90[CHB][hapmap];0.90[JPT][hapmap];0.90[YRI][hapmap];0.86[ASN][1000 genomes]
rs4327332	0.88[ASN][1000 genomes]
rs56223303	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57131555	0.89[ASN][1000 genomes]
rs58724157	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60782093	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61578857	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6765801	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6769167	0.86[ASN][1000 genomes]
rs6792370	0.95[CHB][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7612463	0.89[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7627380	0.90[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9831921	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9866739	0.91[ASN][1000 genomes]
rs9867046	0.90[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	nsv999882	chr3:23121533-23257718	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23231200-23237400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr3:23234200-23235600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:23235200-23235800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:23235400-23235600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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