Variant report

Variant	rs10115888
Chromosome Location	chr9:108026810-108026811
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108005935..108008135-chr9:108024505..108026849,2	MCF-7	breast:
2	chr9:108024809..108030231-chr9:108032274..108037301,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10115083	1.00[YRI][hapmap]
rs10120869	1.00[AFR][1000 genomes]
rs10121261	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12340552	1.00[AFR][1000 genomes]
rs12341779	1.00[YRI][hapmap]
rs12341936	1.00[YRI][hapmap]
rs12342070	1.00[YRI][hapmap]
rs12345584	1.00[YRI][hapmap]
rs12350782	1.00[YRI][hapmap]
rs28407312	1.00[AFR][1000 genomes]
rs28538626	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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
3	nsv831678	chr9:107923522-108112813	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv893685	chr9:107940737-108083485	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893686	chr9:107968330-108083485	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv893687	chr9:107973277-108083485	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv893688	chr9:107974761-108083485	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv893689	chr9:107978563-108130606	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv893690	chr9:107992706-108083485	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108008200-108033600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:108009000-108037200	Weak transcription	Aorta	Aorta
3	chr9:108011600-108031800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr9:108017200-108040800	Weak transcription	HMEC	breast
5	chr9:108017800-108027800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr9:108019600-108027000	Enhancers	Brain Anterior Caudate	brain
7	chr9:108020800-108031200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:108020800-108040000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr9:108021400-108039200	Weak transcription	Pancreas	Pancrea
10	chr9:108021400-108042600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr9:108021600-108031800	Weak transcription	Psoas Muscle	Psoas
12	chr9:108021600-108043200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:108022400-108053600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:108022600-108033000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:108022800-108032000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr9:108022800-108033200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:108022800-108041000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:108022800-108042400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr9:108022800-108046000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr9:108023000-108030200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr9:108023000-108043200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr9:108023200-108029600	Weak transcription	Fetal Lung	lung
23	chr9:108023200-108031800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:108023600-108045200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr9:108023800-108034400	Weak transcription	Fetal Intestine Large	intestine
26	chr9:108024000-108032000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:108024600-108027200	Enhancers	HepG2	liver
28	chr9:108025200-108042400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr9:108025600-108027400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr9:108025600-108028000	Weak transcription	Brain Substantia Nigra	brain
31	chr9:108025600-108030000	Weak transcription	Brain Hippocampus Middle	brain
32	chr9:108025600-108031600	Weak transcription	Brain Angular Gyrus	brain
33	chr9:108025600-108032000	Weak transcription	Colon Smooth Muscle	Colon
34	chr9:108025600-108034600	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr9:108026200-108027000	Enhancers	Hela-S3	cervix
36	chr9:108026400-108027000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr9:108026400-108027000	Enhancers	Brain Cingulate Gyrus	brain
38	chr9:108026400-108027000	Enhancers	Fetal Intestine Small	intestine
39	chr9:108026400-108027200	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr9:108026400-108027600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:108026400-108027600	Enhancers	NHEK	skin
42	chr9:108026600-108027000	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr9:108026600-108027000	Enhancers	Liver	Liver
44	chr9:108026600-108027000	Enhancers	GM12878-XiMat	blood
45	chr9:108026800-108027000	Weak transcription	Lung	lung
46	chr9:108026800-108030200	Weak transcription	Stomach Mucosa	stomach
47	chr9:108026800-108031800	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:108026800-108032000	Weak transcription	Left Ventricle	heart

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