Variant report

Variant	rs9823709
Chromosome Location	chr3:150420438-150420439
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150320068..150322587-chr3:150419780..150423653,7	MCF-7	breast:
2	chr3:150319300..150322608-chr3:150420316..150423261,6	MCF-7	breast:
3	chr3:150419019..150423394-chr3:150479448..150481415,4	MCF-7	breast:
4	chr3:150378930..150380955-chr3:150419043..150420823,2	K562	blood:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000244265	Chromatin interaction
ENSG00000120742	Chromatin interaction
ENSG00000181788	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11713173	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12630268	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1897488	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1897490	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1897492	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1897493	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2116688	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2116689	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2869474	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2904115	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234312	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4679786	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4679799	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4680240	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7427065	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7631055	0.89[EUR][1000 genomes]
rs7652598	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9682304	0.97[EUR][1000 genomes]
rs9832682	0.89[EUR][1000 genomes]
rs9841228	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859732	0.81[EUR][1000 genomes]
rs9876907	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150415800-150421000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:150416000-150420800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:150417400-150420800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:150417400-150420800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:150417400-150420800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:150417400-150420800	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr3:150417400-150421000	Weak transcription	HUVEC	blood vessel
8	chr3:150417400-150421000	Weak transcription	NHDF-Ad	bronchial
9	chr3:150417400-150421200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:150417600-150420800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:150417600-150421000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:150417800-150420600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr3:150417800-150420800	Weak transcription	A549	lung
14	chr3:150417800-150421000	Weak transcription	Hela-S3	cervix
15	chr3:150417800-150421000	Weak transcription	HMEC	breast
16	chr3:150417800-150421000	Weak transcription	NH-A	brain
17	chr3:150417800-150421000	Weak transcription	NHEK	skin
18	chr3:150417800-150421400	Weak transcription	K562	blood
19	chr3:150418000-150420800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:150419400-150420800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:150420200-150420600	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr3:150420200-150420800	Enhancers	Primary T cells fromperipheralblood	blood
23	chr3:150420200-150420800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:150420200-150421000	Enhancers	Pancreas	Pancrea
25	chr3:150420400-150420600	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr3:150420400-150420800	Enhancers	Primary B cells from peripheral blood	blood
27	chr3:150420400-150420800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:150420400-150420800	Enhancers	Primary T helper naive cells from peripheral blood	blood
29	chr3:150420400-150420800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr3:150420400-150420800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:150420400-150420800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
32	chr3:150420400-150420800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr3:150420400-150421000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr3:150420400-150421000	Enhancers	Fetal Thymus	thymus
35	chr3:150420400-150421200	Flanking Active TSS	Primary T cells from cord blood	blood

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