Variant report

Variant	rs7866729
Chromosome Location	chr9:107889881-107889882
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:107689830..107691480-chr9:107888835..107890445,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000226334	Chromatin interaction
ENSG00000165029	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10991555	0.90[EUR][1000 genomes]
rs12003255	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4317634	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4381000	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55872032	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56202605	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56232005	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59179413	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs66488152	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7022410	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7033651	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7047481	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72607110	0.84[ASN][1000 genomes]
rs72607111	0.84[ASN][1000 genomes]
rs72607112	0.93[ASN][1000 genomes]
rs72607113	0.93[ASN][1000 genomes]
rs72607114	0.93[ASN][1000 genomes]
rs72607115	0.93[ASN][1000 genomes]
rs72607116	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607117	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607118	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607119	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607120	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607121	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607122	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607123	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607124	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72607125	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7862701	0.81[EUR][1000 genomes]
rs9792436	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792586	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792666	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792667	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[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	nsv1046935	chr9:107414720-108028061	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107882400-107900600	Weak transcription	Brain Hippocampus Middle	brain
2	chr9:107886600-107891400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr9:107887600-107894600	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr9:107887800-107892600	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr9:107888000-107890000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:107888000-107890000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:107888000-107890000	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr9:107888000-107890400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:107888000-107891600	Enhancers	Adipose Nuclei	Adipose
10	chr9:107888000-107892600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr9:107888200-107890000	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr9:107888200-107890000	Enhancers	Thymus	Thymus
13	chr9:107888200-107890200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
14	chr9:107888200-107890400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:107888200-107890400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr9:107888200-107890400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr9:107888200-107890600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:107888200-107890600	Enhancers	Osteobl	bone
19	chr9:107888200-107891200	Enhancers	Fetal Intestine Small	intestine
20	chr9:107888200-107891600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:107888200-107892000	Enhancers	Primary hematopoietic stem cells	blood
22	chr9:107888200-107892400	Enhancers	Primary T cells fromperipheralblood	blood
23	chr9:107888200-107892400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr9:107888200-107892600	Enhancers	Placenta	Placenta
25	chr9:107888200-107892600	Enhancers	Fetal Thymus	thymus
26	chr9:107888400-107890000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr9:107888400-107890600	Enhancers	Muscle Satellite Cultured Cells	--
28	chr9:107888400-107891800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr9:107888400-107892000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr9:107888600-107890400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr9:107888600-107890600	Enhancers	NH-A	brain
32	chr9:107888600-107892000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:107888800-107891000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr9:107888800-107900800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:107889000-107890200	Weak transcription	Right Atrium	heart
36	chr9:107889000-107891200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:107889000-107891400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr9:107889200-107890000	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr9:107889200-107890200	Enhancers	NHEK	skin
40	chr9:107889200-107890400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr9:107889200-107890400	Enhancers	NHDF-Ad	bronchial
42	chr9:107889200-107890400	Enhancers	NHLF	lung
43	chr9:107889200-107891400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr9:107889200-107891600	Enhancers	Primary B cells from cord blood	blood
45	chr9:107889400-107890000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr9:107889400-107890000	Enhancers	Colonic Mucosa	Colon
47	chr9:107889400-107890000	Enhancers	Duodenum Mucosa	Duodenum
48	chr9:107889400-107890000	Enhancers	HepG2	liver
49	chr9:107889400-107890200	Enhancers	Hela-S3	cervix
50	chr9:107889400-107890200	Enhancers	HMEC	breast

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