Variant report

Variant	rs3739755
Chromosome Location	chr9:98677849-98677850
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12003772	0.90[ASN][1000 genomes]
rs12551596	0.95[ASN][1000 genomes]
rs12551880	0.91[ASN][1000 genomes]
rs12554182	0.88[ASN][1000 genomes]
rs12555687	0.95[ASN][1000 genomes]
rs1413178	0.95[ASN][1000 genomes]
rs16910333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16910342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16910409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16910427	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17303324	0.91[ASN][1000 genomes]
rs2297009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3739756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4742763	0.91[ASN][1000 genomes]
rs4742769	0.95[ASN][1000 genomes]
rs4742801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4743327	0.85[ASN][1000 genomes]
rs4743351	0.90[ASN][1000 genomes]
rs4743383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4743469	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4743507	1.00[AFR][1000 genomes]
rs4743508	1.00[AFR][1000 genomes]
rs55651016	0.98[ASN][1000 genomes]
rs55770584	0.91[ASN][1000 genomes]
rs55781050	0.95[ASN][1000 genomes]
rs55797980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55849673	1.00[AFR][1000 genomes]
rs55865494	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55881510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55888215	1.00[AFR][1000 genomes]
rs56063686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56070531	0.91[ASN][1000 genomes]
rs56110216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56125887	0.95[ASN][1000 genomes]
rs56319412	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56372801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56403401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57096664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57287260	1.00[AFR][1000 genomes]
rs58654424	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs59046245	0.95[ASN][1000 genomes]
rs59189545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60351339	1.00[AFR][1000 genomes]
rs61036807	0.95[ASN][1000 genomes]
rs61093440	0.95[ASN][1000 genomes]
rs9721742	0.80[ASN][1000 genomes]
rs9792431	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9792684	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
3	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
4	esv1801890	chr9:98660433-98701801	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Enhancers Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv3496790	chr9:98674330-98678107	Weak transcription Strong transcription Enhancers	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv3496791	chr9:98674330-98678107	Strong transcription Weak transcription Enhancers	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98638800-98702200	Weak transcription	Pancreas	Pancrea
2	chr9:98639400-98678000	Weak transcription	Ovary	ovary
3	chr9:98639600-98678000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr9:98640000-98678200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:98640000-98680600	Weak transcription	Colonic Mucosa	Colon
6	chr9:98640000-98685600	Weak transcription	Right Ventricle	heart
7	chr9:98640000-98718600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr9:98640200-98678200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:98640600-98678000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr9:98642600-98678000	Weak transcription	Colon Smooth Muscle	Colon
11	chr9:98642600-98680600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:98642800-98681800	Weak transcription	Fetal Kidney	kidney
13	chr9:98644400-98678400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr9:98644400-98685600	Weak transcription	Gastric	stomach
15	chr9:98644600-98678000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:98644600-98690800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr9:98645600-98684200	Weak transcription	Brain Hippocampus Middle	brain
18	chr9:98645800-98678400	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr9:98645800-98702200	Weak transcription	Aorta	Aorta
20	chr9:98646000-98680200	Weak transcription	K562	blood
21	chr9:98646600-98681800	Weak transcription	HSMMtube	muscle
22	chr9:98647600-98678000	Weak transcription	Stomach Smooth Muscle	stomach
23	chr9:98648200-98678600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:98649400-98694400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:98649400-98718600	Weak transcription	Spleen	Spleen
26	chr9:98649600-98679000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr9:98653800-98678400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr9:98655200-98679800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr9:98658400-98678400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr9:98659200-98685600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr9:98659800-98684200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr9:98660000-98706000	Weak transcription	Fetal Heart	heart
33	chr9:98660200-98684000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr9:98662600-98678000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr9:98664000-98678200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr9:98664000-98678400	Weak transcription	Fetal Intestine Small	intestine
37	chr9:98664000-98678400	Weak transcription	Fetal Stomach	stomach
38	chr9:98664000-98683200	Weak transcription	Brain Angular Gyrus	brain
39	chr9:98664000-98685600	Weak transcription	Brain Anterior Caudate	brain
40	chr9:98664000-98687400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr9:98664200-98680600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr9:98664200-98683600	Weak transcription	HMEC	breast
43	chr9:98664200-98685200	Weak transcription	Hela-S3	cervix
44	chr9:98664400-98685600	Weak transcription	NHEK	skin
45	chr9:98664800-98678400	Weak transcription	NH-A	brain
46	chr9:98669000-98681800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr9:98669600-98678200	Weak transcription	Fetal Brain Female	brain
48	chr9:98669800-98683600	Weak transcription	NHLF	lung
49	chr9:98670200-98678000	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr9:98670200-98678200	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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