Variant report

Variant	rs10809908
Chromosome Location	chr9:13136564-13136565
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10116304	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10116749	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10122431	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10125770	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10511577	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10733254	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10738323	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10738324	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10738325	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756454	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10756455	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10756456	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10756457	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10756458	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10756459	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10809906	0.94[ASN][1000 genomes]
rs10809907	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10809912	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10960955	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10960958	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10960959	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12351444	0.81[ASN][1000 genomes]
rs1331668	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1331670	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1331672	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1331673	0.80[ASN][1000 genomes]
rs1331674	0.83[ASN][1000 genomes]
rs1360058	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1556421	0.81[ASN][1000 genomes]
rs16930137	0.88[ASN][1000 genomes]
rs1854414	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1854907	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1854908	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1854909	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1929541	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1999393	0.81[ASN][1000 genomes]
rs2225483	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2274856	0.83[ASN][1000 genomes]
rs2297003	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35068818	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3818595	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4237130	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58794982	0.88[ASN][1000 genomes]
rs6474753	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6474754	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6474755	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7024892	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7035244	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7037704	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7039646	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7040347	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7859465	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7867993	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7871112	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7871575	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9886797	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917331	chr9:12941193-13146852	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892582	chr9:13085379-13147764	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13097800-13139400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:13101600-13141600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr9:13103200-13137200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr9:13103200-13143400	Weak transcription	Pancreas	Pancrea
5	chr9:13103200-13163400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:13103200-13175600	Weak transcription	HepG2	liver
7	chr9:13103800-13139400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:13104400-13137200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:13105600-13144600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:13106000-13153400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr9:13106600-13139200	Weak transcription	NHEK	skin
12	chr9:13109200-13138800	Weak transcription	Spleen	Spleen
13	chr9:13109200-13139400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:13112200-13143600	Weak transcription	Gastric	stomach
15	chr9:13114600-13139200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr9:13114600-13139400	Weak transcription	NHDF-Ad	bronchial
17	chr9:13116000-13139800	Strong transcription	Liver	Liver
18	chr9:13118000-13139000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:13118200-13138800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr9:13118400-13139600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr9:13118800-13139600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:13118800-13139800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr9:13119000-13137200	Weak transcription	Esophagus	oesophagus
24	chr9:13121600-13225200	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr9:13121800-13139800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr9:13122600-13186400	Weak transcription	Primary hematopoietic stem cells	blood
27	chr9:13127800-13138600	Weak transcription	Colonic Mucosa	Colon
28	chr9:13128400-13139400	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr9:13128600-13137400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:13129400-13138800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr9:13130000-13138800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr9:13130200-13139000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr9:13130400-13136800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr9:13130400-13137200	Strong transcription	Ovary	ovary
35	chr9:13130400-13138400	Strong transcription	Osteobl	bone
36	chr9:13130400-13139400	Strong transcription	Stomach Smooth Muscle	stomach
37	chr9:13130800-13137000	Strong transcription	Left Ventricle	heart
38	chr9:13130800-13138200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr9:13130800-13138400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:13130800-13139400	Strong transcription	Fetal Muscle Leg	muscle
41	chr9:13130800-13139400	Strong transcription	HSMM	muscle
42	chr9:13131200-13137000	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr9:13131200-13139600	Strong transcription	Fetal Intestine Large	intestine
44	chr9:13131200-13140200	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr9:13131400-13139000	Strong transcription	Adipose Nuclei	Adipose
46	chr9:13131400-13140000	Strong transcription	Fetal Muscle Trunk	muscle
47	chr9:13131800-13138600	Strong transcription	Fetal Brain Female	brain
48	chr9:13132000-13136600	Strong transcription	Brain Anterior Caudate	brain
49	chr9:13132000-13140000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr9:13132200-13136600	Strong transcription	Brain Substantia Nigra	brain

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