Variant report

Variant	rs28409512
Chromosome Location	chr9:108149203-108149204
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10116656	0.93[AFR][1000 genomes]
rs10120833	0.84[AMR][1000 genomes]
rs10991642	0.84[AMR][1000 genomes]
rs11506819	0.88[AFR][1000 genomes]
rs12115272	0.93[AMR][1000 genomes]
rs12348983	0.87[AFR][1000 genomes]
rs13289885	0.93[AFR][1000 genomes]
rs16924487	0.87[AFR][1000 genomes]
rs16924552	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2417642	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6479317	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7034136	0.93[AFR][1000 genomes]
rs7040751	0.87[AFR][1000 genomes]
rs7048586	0.93[AFR][1000 genomes]
rs7868841	0.84[AMR][1000 genomes]
rs7871427	0.84[AMR][1000 genomes]
rs9299385	0.87[AFR][1000 genomes]
rs9299386	0.94[AFR][1000 genomes]
rs9299387	0.94[AFR][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	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
2	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108055600-108151200	Weak transcription	Esophagus	oesophagus
2	chr9:108091600-108150400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr9:108093200-108149800	Weak transcription	HUVEC	blood vessel
4	chr9:108096200-108164200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:108100200-108149600	Weak transcription	Pancreas	Pancrea
6	chr9:108105000-108149600	Weak transcription	Right Ventricle	heart
7	chr9:108105000-108151200	Weak transcription	Gastric	stomach
8	chr9:108105000-108154800	Weak transcription	Small Intestine	intestine
9	chr9:108105200-108149800	Weak transcription	NHDF-Ad	bronchial
10	chr9:108121600-108157000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr9:108122600-108153400	Weak transcription	Stomach Mucosa	stomach
12	chr9:108123600-108154400	Weak transcription	Colonic Mucosa	Colon
13	chr9:108124400-108151000	Weak transcription	Fetal Brain Male	brain
14	chr9:108124600-108151800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr9:108125000-108166800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr9:108125400-108149800	Weak transcription	HSMMtube	muscle
17	chr9:108125600-108157000	Weak transcription	Osteobl	bone
18	chr9:108126000-108152000	Weak transcription	Brain Germinal Matrix	brain
19	chr9:108127200-108151800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr9:108128200-108151400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr9:108136200-108152000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:108137400-108150600	Weak transcription	Fetal Heart	heart
23	chr9:108137800-108155400	Weak transcription	Lung	lung
24	chr9:108137800-108156200	Weak transcription	Fetal Stomach	stomach
25	chr9:108137800-108156400	Weak transcription	Aorta	Aorta
26	chr9:108137800-108157200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:108137800-108158200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:108138000-108156400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr9:108138000-108156400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:108138400-108149600	Weak transcription	Placenta	Placenta
31	chr9:108138600-108153000	Weak transcription	Fetal Brain Female	brain
32	chr9:108138800-108152000	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr9:108142200-108151400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr9:108143600-108157000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr9:108146200-108151400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr9:108146800-108151800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr9:108146800-108177600	Weak transcription	Left Ventricle	heart
38	chr9:108148000-108149600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr9:108148000-108151200	Weak transcription	HepG2	liver
40	chr9:108148000-108151800	Weak transcription	Brain Angular Gyrus	brain
41	chr9:108148000-108155200	Weak transcription	HSMM	muscle
42	chr9:108148200-108150000	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr9:108148200-108150200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr9:108148200-108150600	Weak transcription	NHEK	skin
45	chr9:108148200-108151000	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr9:108148200-108152000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr9:108148200-108152200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr9:108148200-108153800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:108148200-108154000	Weak transcription	Fetal Intestine Small	intestine
50	chr9:108148200-108155800	Weak transcription	Adipose Nuclei	Adipose

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