Variant report

Variant	rs2806689
Chromosome Location	chr9:103021534-103021535
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10117799	0.86[ASN][1000 genomes]
rs10118701	0.86[ASN][1000 genomes]
rs10123866	0.86[ASN][1000 genomes]
rs10123913	0.86[ASN][1000 genomes]
rs10124893	0.84[ASN][1000 genomes]
rs10125785	0.84[ASN][1000 genomes]
rs10760724	0.81[ASN][1000 genomes]
rs10819739	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10819751	0.87[ASN][1000 genomes]
rs10819759	0.83[ASN][1000 genomes]
rs10989049	0.84[ASN][1000 genomes]
rs1099910	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11789196	0.86[ASN][1000 genomes]
rs1338121	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1338123	0.87[ASN][1000 genomes]
rs1338124	0.87[ASN][1000 genomes]
rs1338125	0.87[ASN][1000 genomes]
rs1338126	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535667	0.80[AMR][1000 genomes]
rs1572607	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1999877	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2065997	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2245216	0.86[ASN][1000 genomes]
rs2476439	0.82[AMR][1000 genomes]
rs2485745	0.84[ASN][1000 genomes]
rs2491096	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2491098	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2787364	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2787368	0.83[ASN][1000 genomes]
rs2787369	0.83[ASN][1000 genomes]
rs2787371	0.84[ASN][1000 genomes]
rs2787372	0.86[ASN][1000 genomes]
rs2787373	0.86[ASN][1000 genomes]
rs2787374	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2787375	0.86[ASN][1000 genomes]
rs2787377	0.84[ASN][1000 genomes]
rs2787379	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2787380	0.86[ASN][1000 genomes]
rs2787381	0.86[ASN][1000 genomes]
rs2787382	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787383	0.87[ASN][1000 genomes]
rs2787384	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787385	0.86[ASN][1000 genomes]
rs2787386	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2787388	0.87[ASN][1000 genomes]
rs2787393	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2787396	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2806681	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2806684	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2806685	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2806687	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2806688	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2806690	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2806691	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2806692	0.87[ASN][1000 genomes]
rs2806693	0.84[ASN][1000 genomes]
rs2806694	0.84[ASN][1000 genomes]
rs2806695	0.86[ASN][1000 genomes]
rs2806696	0.87[ASN][1000 genomes]
rs2806697	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2806699	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2806700	0.94[ASN][1000 genomes]
rs2806701	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2806702	0.84[ASN][1000 genomes]
rs2806703	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3813712	0.84[ASN][1000 genomes]
rs3923501	0.84[ASN][1000 genomes]
rs4128230	0.81[ASN][1000 genomes]
rs4237195	0.86[ASN][1000 genomes]
rs4446782	0.84[ASN][1000 genomes]
rs4742782	0.86[ASN][1000 genomes]
rs4743392	0.84[ASN][1000 genomes]
rs4743393	0.83[ASN][1000 genomes]
rs5029342	0.86[ASN][1000 genomes]
rs5029343	0.84[ASN][1000 genomes]
rs6479008	0.83[ASN][1000 genomes]
rs6479009	0.84[ASN][1000 genomes]
rs7020988	0.84[ASN][1000 genomes]
rs7025938	0.86[ASN][1000 genomes]
rs7035619	0.86[ASN][1000 genomes]
rs7472	0.86[ASN][1000 genomes]
rs7849966	0.84[ASN][1000 genomes]
rs7854693	0.86[ASN][1000 genomes]
rs7856844	0.81[EUR][1000 genomes]
rs7864494	0.86[ASN][1000 genomes]
rs7865678	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs846763	0.80[AMR][1000 genomes]
rs863668	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9408998	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs946054	0.86[ASN][1000 genomes]
rs9775014	0.81[ASN][1000 genomes]
rs9775182	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529618	chr9:102227922-103044018	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv531599	chr9:102227922-103156864	Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1048674	chr9:102752236-103038259	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1052007	chr9:102766948-103033937	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	esv1835721	chr9:102991314-103096666	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	esv3353349	chr9:103014446-103038360	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:102972400-103035200	Weak transcription	Esophagus	oesophagus
2	chr9:102972600-103027200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr9:102972600-103046600	Weak transcription	Psoas Muscle	Psoas
4	chr9:102973000-103027400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr9:102973000-103053800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr9:102974000-103047600	Weak transcription	Fetal Brain Male	brain
7	chr9:102975800-103045800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:102976800-103047800	Weak transcription	Fetal Heart	heart
9	chr9:102979400-103054600	Weak transcription	NHEK	skin
10	chr9:102987400-103045800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr9:102987400-103054600	Weak transcription	Gastric	stomach
12	chr9:102989400-103047200	Weak transcription	GM12878-XiMat	blood
13	chr9:102989600-103027600	Weak transcription	A549	lung
14	chr9:102992400-103027200	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr9:102992600-103039000	Weak transcription	NHDF-Ad	bronchial
16	chr9:102994800-103046600	Weak transcription	Pancreas	Pancrea
17	chr9:102997800-103054400	Weak transcription	Colonic Mucosa	Colon
18	chr9:102999600-103027400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr9:102999800-103028000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr9:102999800-103035200	Weak transcription	Right Ventricle	heart
21	chr9:103000000-103021600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr9:103000000-103034800	Weak transcription	Aorta	Aorta
23	chr9:103000200-103027400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr9:103002600-103027200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr9:103003400-103046800	Weak transcription	HMEC	breast
26	chr9:103006000-103027400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr9:103006000-103039200	Weak transcription	HSMM	muscle
28	chr9:103007800-103027200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr9:103008800-103039600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr9:103009400-103047600	Weak transcription	HUVEC	blood vessel
31	chr9:103010800-103035400	Weak transcription	Colon Smooth Muscle	Colon
32	chr9:103013000-103047400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr9:103015000-103034800	Weak transcription	Thymus	Thymus
34	chr9:103015000-103046800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr9:103015400-103026200	Weak transcription	Primary T cells from cord blood	blood
36	chr9:103015400-103027000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr9:103015400-103027200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr9:103015400-103027200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr9:103015400-103027200	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr9:103015400-103027200	Weak transcription	Fetal Intestine Large	intestine
41	chr9:103015400-103027200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr9:103015400-103027400	Weak transcription	Hela-S3	cervix
43	chr9:103015400-103027600	Weak transcription	Primary B cells from peripheral blood	blood
44	chr9:103015400-103027600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr9:103015400-103027800	Weak transcription	Brain Angular Gyrus	brain
46	chr9:103015400-103039200	Weak transcription	Osteobl	bone
47	chr9:103015400-103039800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr9:103015400-103046400	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr9:103015400-103046600	Weak transcription	Brain Substantia Nigra	brain
50	chr9:103015400-103046800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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