Variant report

Variant	rs72607125
Chromosome Location	chr9:107889259-107889260
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	chr9:107752738..107754910-chr9:107887167..107889411,2	MCF-7	breast:
2	chr9:107689830..107691480-chr9:107888835..107890445,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165029	Chromatin interaction
ENSG00000230013	Chromatin interaction
ENSG00000226334	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	0.86[EUR][1000 genomes]
rs12003255	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4317634	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4381000	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55872032	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56202605	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56232005	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59179413	0.90[EUR][1000 genomes]
rs66488152	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7022410	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7033651	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7047481	0.97[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	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607117	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607118	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607119	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607120	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607121	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607122	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607123	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72607124	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7866729	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7872742	0.80[EUR][1000 genomes]
rs9792436	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792586	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792666	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9792667	0.90[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:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107881800-107889800	Weak transcription	Esophagus	oesophagus
2	chr9:107882400-107900600	Weak transcription	Brain Hippocampus Middle	brain
3	chr9:107885000-107889400	Weak transcription	Fetal Intestine Large	intestine
4	chr9:107886600-107891400	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr9:107887600-107894600	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr9:107887800-107889800	Enhancers	Primary T cells from cord blood	blood
7	chr9:107887800-107889800	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr9:107887800-107892600	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr9:107888000-107889800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr9:107888000-107889800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr9:107888000-107889800	Enhancers	Dnd41	blood
12	chr9:107888000-107890000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:107888000-107890000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr9:107888000-107890000	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr9:107888000-107890400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:107888000-107891600	Enhancers	Adipose Nuclei	Adipose
17	chr9:107888000-107892600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr9:107888200-107889600	Enhancers	Placenta Amnion	Placenta Amnion
19	chr9:107888200-107889800	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr9:107888200-107889800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:107888200-107890000	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr9:107888200-107890000	Enhancers	Thymus	Thymus
23	chr9:107888200-107890200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr9:107888200-107890400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr9:107888200-107890400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:107888200-107890400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:107888200-107890600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr9:107888200-107890600	Enhancers	Osteobl	bone
29	chr9:107888200-107891200	Enhancers	Fetal Intestine Small	intestine
30	chr9:107888200-107891600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:107888200-107892000	Enhancers	Primary hematopoietic stem cells	blood
32	chr9:107888200-107892400	Enhancers	Primary T cells fromperipheralblood	blood
33	chr9:107888200-107892400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr9:107888200-107892600	Enhancers	Placenta	Placenta
35	chr9:107888200-107892600	Enhancers	Fetal Thymus	thymus
36	chr9:107888400-107889600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:107888400-107889800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr9:107888400-107890000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
39	chr9:107888400-107890600	Enhancers	Muscle Satellite Cultured Cells	--
40	chr9:107888400-107891800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
41	chr9:107888400-107892000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:107888600-107890400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr9:107888600-107890600	Enhancers	NH-A	brain
44	chr9:107888600-107892000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:107888800-107891000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr9:107888800-107900800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:107889000-107890200	Weak transcription	Right Atrium	heart
48	chr9:107889000-107891200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:107889000-107891400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr9:107889200-107890000	Enhancers	Monocytes-CD14+_RO01746	blood

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