Variant report

Variant	rs16929546
Chromosome Location	chr11:3999160-3999161
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10430939	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10458900	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs10500591	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs10500592	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs11030251	0.96[ASN][1000 genomes]
rs11030286	0.96[ASN][1000 genomes]
rs11030326	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11030327	1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11030366	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11030417	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11030418	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11030453	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11030478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030481	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030486	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030697	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs11030796	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs11525342	0.90[ASN][1000 genomes]
rs11529865	0.90[ASN][1000 genomes]
rs12222250	1.00[CHB][hapmap];0.88[JPT][hapmap];0.96[ASN][1000 genomes]
rs12224469	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1372803	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs16929410	0.81[CHB][hapmap]
rs16929438	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[YRI][hapmap];0.84[ASN][1000 genomes]
rs16929467	1.00[CEU][hapmap];0.88[CHB][hapmap];0.83[ASN][1000 genomes]
rs16929477	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs16929480	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs16929488	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[ASN][1000 genomes]
rs16929492	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs16929529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16929540	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16929542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929551	0.89[YRI][hapmap]
rs16929583	0.91[YRI][hapmap]
rs16929611	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs16929616	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16929653	0.82[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1822286	1.00[CEU][hapmap];0.88[CHB][hapmap];0.86[ASN][1000 genomes]
rs1899478	0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2167563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs3750994	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs4910877	1.00[YRI][hapmap]
rs4910878	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs55679086	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55978228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56126231	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56140937	0.84[ASN][1000 genomes]
rs58288151	0.90[AFR][1000 genomes]
rs59195871	0.93[ASN][1000 genomes]
rs59242983	0.86[ASN][1000 genomes]
rs59984032	0.85[AFR][1000 genomes]
rs60930198	0.87[ASN][1000 genomes]
rs61897162	0.95[ASN][1000 genomes]
rs61897163	0.96[ASN][1000 genomes]
rs61897164	0.96[ASN][1000 genomes]
rs61897166	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897167	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs61897170	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897171	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897194	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897195	0.96[ASN][1000 genomes]
rs61897201	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61897203	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61897206	0.81[ASN][1000 genomes]
rs61897234	0.89[ASN][1000 genomes]
rs61897237	0.87[ASN][1000 genomes]
rs61897238	0.86[ASN][1000 genomes]
rs61897254	0.84[ASN][1000 genomes]
rs6578423	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.97[ASN][1000 genomes]
rs723779	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72847181	0.80[ASN][1000 genomes]
rs72851736	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73427572	0.90[AFR][1000 genomes]
rs750526	1.00[CHB][hapmap];0.88[JPT][hapmap];0.96[ASN][1000 genomes]
rs7928117	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs7934581	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs7941743	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs894454	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1046065	chr11:3808818-4049150	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv540909	chr11:3808818-4049150	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3961200-4002000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr11:3973200-4008400	Weak transcription	Fetal Lung	lung
3	chr11:3975000-4006000	Weak transcription	Right Ventricle	heart
4	chr11:3982600-4004400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr11:3982600-4005600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:3982600-4006000	Weak transcription	Left Ventricle	heart
7	chr11:3984000-4010400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:3985000-4002400	Weak transcription	NHDF-Ad	bronchial
9	chr11:3985800-4001200	Weak transcription	Small Intestine	intestine
10	chr11:3986000-4008000	Weak transcription	HepG2	liver
11	chr11:3987000-4010400	Weak transcription	Fetal Intestine Small	intestine
12	chr11:3987200-4001600	Weak transcription	Gastric	stomach
13	chr11:3988000-4002400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr11:3988200-4006200	Weak transcription	Pancreas	Pancrea
15	chr11:3989400-4010600	Weak transcription	Spleen	Spleen
16	chr11:3989400-4031000	Weak transcription	Aorta	Aorta
17	chr11:3989800-4002400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr11:3989800-4006000	Weak transcription	Rectal Smooth Muscle	rectum
19	chr11:3989800-4006200	Weak transcription	Fetal Muscle Leg	muscle
20	chr11:3989800-4006600	Weak transcription	Liver	Liver
21	chr11:3990000-4002000	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr11:3990400-4006000	Weak transcription	Stomach Smooth Muscle	stomach
23	chr11:3990600-4000600	Weak transcription	Primary B cells from cord blood	blood
24	chr11:3991200-4000800	Weak transcription	Ovary	ovary
25	chr11:3991200-4002400	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr11:3991200-4004400	Weak transcription	Primary B cells from peripheral blood	blood
27	chr11:3991200-4006200	Weak transcription	Adipose Nuclei	Adipose
28	chr11:3991400-4003000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr11:3991600-4000000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr11:3991600-4000400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr11:3991600-4002800	Weak transcription	Dnd41	blood
32	chr11:3991600-4003800	Weak transcription	Primary hematopoietic stem cells	blood
33	chr11:3991600-4004400	Weak transcription	GM12878-XiMat	blood
34	chr11:3991800-4000000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr11:3993200-4000000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr11:3993200-4003800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr11:3993400-4000400	Weak transcription	Primary T cells from cord blood	blood
38	chr11:3993600-4000000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr11:3993800-3999800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr11:3993800-4003600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr11:3994400-4016600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr11:3994600-3999200	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr11:3994600-4002000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr11:3994600-4002400	Weak transcription	Esophagus	oesophagus
45	chr11:3994600-4002400	Weak transcription	Thymus	Thymus
46	chr11:3995200-4000200	Weak transcription	Fetal Thymus	thymus
47	chr11:3995400-4004200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr11:3995400-4005800	Weak transcription	Fetal Stomach	stomach
49	chr11:3996800-4002200	Weak transcription	Psoas Muscle	Psoas
50	chr11:3997000-4004800	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links