Variant report

Variant	rs9777083
Chromosome Location	chr9:108019357-108019358
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	chr9:108017304..108019990-chr9:108021859..108023819,2	MCF-7	breast:
2	chr9:108006717..108009348-chr9:108018755..108022219,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12341869	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28688962	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57877883	1.00[AMR][1000 genomes]
rs59290851	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6479300	1.00[AFR][1000 genomes]
rs6479301	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479302	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479303	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7024012	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7026389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7033929	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7039638	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7046185	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7048497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72744219	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72744225	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73510211	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510289	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510295	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666624	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666625	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7847744	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7847952	0.94[AFR][1000 genomes]
rs7853038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7853709	0.83[AMR][1000 genomes]
rs7854064	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7854282	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7857088	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7860356	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7869261	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7873924	0.83[AMR][1000 genomes]
rs7874307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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
10	nsv893691	chr9:107994629-108020284	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108008200-108033600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:108008400-108019400	Weak transcription	Left Ventricle	heart
3	chr9:108008400-108020000	Weak transcription	Primary T cells from cord blood	blood
4	chr9:108008600-108020000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr9:108008800-108022400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr9:108009000-108037200	Weak transcription	Aorta	Aorta
7	chr9:108009200-108019400	Weak transcription	Ovary	ovary
8	chr9:108009400-108022200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:108010200-108019800	Weak transcription	Right Atrium	heart
10	chr9:108010400-108026200	Weak transcription	Hela-S3	cervix
11	chr9:108010800-108019600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr9:108011400-108022400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:108011600-108019400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:108011600-108020000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:108011600-108021800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr9:108011600-108031800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr9:108012200-108020200	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr9:108013000-108024200	Weak transcription	Esophagus	oesophagus
19	chr9:108014600-108022200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr9:108015000-108019600	Weak transcription	Fetal Lung	lung
21	chr9:108015800-108025600	Enhancers	Brain Cingulate Gyrus	brain
22	chr9:108016600-108019800	Weak transcription	GM12878-XiMat	blood
23	chr9:108016800-108019800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:108016800-108020600	Weak transcription	Right Ventricle	heart
25	chr9:108016800-108021400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr9:108016800-108022400	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr9:108017000-108019400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:108017000-108019600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:108017000-108021400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr9:108017000-108021400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:108017000-108021600	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:108017000-108022200	Weak transcription	A549	lung
33	chr9:108017200-108019600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr9:108017200-108019600	Weak transcription	HepG2	liver
35	chr9:108017200-108019800	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr9:108017200-108020000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:108017200-108020000	Weak transcription	Pancreas	Pancrea
38	chr9:108017200-108020200	Weak transcription	Gastric	stomach
39	chr9:108017200-108020800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr9:108017200-108021400	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr9:108017200-108021600	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr9:108017200-108040800	Weak transcription	HMEC	breast
43	chr9:108017800-108020400	Weak transcription	Liver	Liver
44	chr9:108017800-108027800	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr9:108018000-108019800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr9:108018000-108020000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr9:108018200-108019400	Weak transcription	Brain Substantia Nigra	brain
48	chr9:108018200-108019400	Weak transcription	Colon Smooth Muscle	Colon
49	chr9:108018200-108019600	Weak transcription	Fetal Intestine Small	intestine
50	chr9:108018200-108019600	Weak transcription	Stomach Mucosa	stomach

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