Variant report

Variant	rs11515542
Chromosome Location	chr9:103017689-103017690
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10819755	0.84[EUR][1000 genomes]
rs10819757	0.96[EUR][1000 genomes]
rs10819758	0.94[EUR][1000 genomes]
rs10819760	0.96[EUR][1000 genomes]
rs10819765	0.88[EUR][1000 genomes]
rs10819766	0.89[EUR][1000 genomes]
rs10819768	0.88[EUR][1000 genomes]
rs10989041	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989046	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989047	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10989050	0.96[EUR][1000 genomes]
rs10989051	0.96[EUR][1000 genomes]
rs10989062	0.91[EUR][1000 genomes]
rs10989063	0.90[EUR][1000 genomes]
rs10989068	0.89[EUR][1000 genomes]
rs10989069	0.89[EUR][1000 genomes]
rs10989072	0.89[EUR][1000 genomes]
rs11515449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788648	0.96[EUR][1000 genomes]
rs11790431	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11791943	0.84[EUR][1000 genomes]
rs11795004	0.89[EUR][1000 genomes]
rs12003468	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12005177	0.94[EUR][1000 genomes]
rs12379480	0.84[EUR][1000 genomes]
rs16919024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3199998	0.96[EUR][1000 genomes]
rs41274951	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs41274961	0.91[EUR][1000 genomes]
rs7028101	0.97[EUR][1000 genomes]
rs7029342	0.94[EUR][1000 genomes]
rs7036972	0.96[EUR][1000 genomes]
rs7037122	0.96[EUR][1000 genomes]
rs7037419	0.91[EUR][1000 genomes]
rs7039994	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7849019	0.96[EUR][1000 genomes]
rs7866700	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873560	0.89[EUR][1000 genomes]
rs7874036	0.96[EUR][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:103 , 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	chr9:102986600-103018800	Weak transcription	Small Intestine	intestine
11	chr9:102987400-103045800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr9:102987400-103054600	Weak transcription	Gastric	stomach
13	chr9:102989400-103047200	Weak transcription	GM12878-XiMat	blood
14	chr9:102989600-103027600	Weak transcription	A549	lung
15	chr9:102992400-103027200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr9:102992600-103039000	Weak transcription	NHDF-Ad	bronchial
17	chr9:102994800-103046600	Weak transcription	Pancreas	Pancrea
18	chr9:102997800-103054400	Weak transcription	Colonic Mucosa	Colon
19	chr9:102999600-103027400	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr9:102999800-103020600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr9:102999800-103028000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr9:102999800-103035200	Weak transcription	Right Ventricle	heart
23	chr9:103000000-103021000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr9:103000000-103021000	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr9:103000000-103021000	Weak transcription	Fetal Thymus	thymus
26	chr9:103000000-103021000	Weak transcription	Lung	lung
27	chr9:103000000-103021600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr9:103000000-103034800	Weak transcription	Aorta	Aorta
29	chr9:103000200-103027400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr9:103000400-103020600	Weak transcription	Fetal Stomach	stomach
31	chr9:103002600-103027200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr9:103003400-103046800	Weak transcription	HMEC	breast
33	chr9:103006000-103027400	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr9:103006000-103039200	Weak transcription	HSMM	muscle
35	chr9:103006600-103019000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr9:103007800-103027200	Weak transcription	Brain Cingulate Gyrus	brain
37	chr9:103008800-103039600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr9:103009400-103047600	Weak transcription	HUVEC	blood vessel
39	chr9:103010000-103020400	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr9:103010800-103035400	Weak transcription	Colon Smooth Muscle	Colon
41	chr9:103013000-103047400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr9:103013400-103020600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr9:103015000-103034800	Weak transcription	Thymus	Thymus
44	chr9:103015000-103046800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr9:103015400-103018000	Weak transcription	HSMMtube	muscle
46	chr9:103015400-103020400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr9:103015400-103020400	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr9:103015400-103020400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr9:103015400-103020400	Weak transcription	Fetal Muscle Leg	muscle
50	chr9:103015400-103020400	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links