Variant report

Variant	rs16929529
Chromosome Location	chr11:4003746-4003747
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:4003558..4006551-chr11:4007203..4009019,2	K562	blood:

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];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030479	0.96[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];0.96[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];0.96[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];0.85[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];0.96[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];0.88[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];0.88[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]
rs16929531	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]
rs16929538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[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];0.96[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];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929546	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]
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];0.94[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	0.80[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	0.96[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	0.85[AFR][1000 genomes]
rs59195871	0.93[ASN][1000 genomes]
rs59242983	0.86[ASN][1000 genomes]
rs59984032	0.81[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	0.96[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	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73427572	0.85[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:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3973200-4008400	Weak transcription	Fetal Lung	lung
2	chr11:3975000-4006000	Weak transcription	Right Ventricle	heart
3	chr11:3982600-4004400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:3982600-4005600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr11:3982600-4006000	Weak transcription	Left Ventricle	heart
6	chr11:3984000-4010400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr11:3986000-4008000	Weak transcription	HepG2	liver
8	chr11:3987000-4010400	Weak transcription	Fetal Intestine Small	intestine
9	chr11:3988200-4006200	Weak transcription	Pancreas	Pancrea
10	chr11:3989400-4010600	Weak transcription	Spleen	Spleen
11	chr11:3989400-4031000	Weak transcription	Aorta	Aorta
12	chr11:3989800-4006000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr11:3989800-4006200	Weak transcription	Fetal Muscle Leg	muscle
14	chr11:3989800-4006600	Weak transcription	Liver	Liver
15	chr11:3990400-4006000	Weak transcription	Stomach Smooth Muscle	stomach
16	chr11:3991200-4004400	Weak transcription	Primary B cells from peripheral blood	blood
17	chr11:3991200-4006200	Weak transcription	Adipose Nuclei	Adipose
18	chr11:3991600-4003800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr11:3991600-4004400	Weak transcription	GM12878-XiMat	blood
20	chr11:3993200-4003800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr11:3994400-4016600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr11:3995400-4004200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr11:3995400-4005800	Weak transcription	Fetal Stomach	stomach
24	chr11:3997000-4004800	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr11:3997200-4004800	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr11:3998600-4008800	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr11:3999200-4004400	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr11:4000600-4010800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr11:4000800-4003800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr11:4001000-4004000	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr11:4001000-4006000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr11:4001400-4006200	Weak transcription	Small Intestine	intestine
33	chr11:4001400-4011800	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr11:4001800-4006000	Weak transcription	Primary B cells from cord blood	blood
35	chr11:4002000-4005000	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr11:4002000-4005600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr11:4002000-4006000	Weak transcription	Fetal Heart	heart
38	chr11:4002200-4008600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr11:4002200-4008600	Weak transcription	Gastric	stomach
40	chr11:4002400-4003800	Enhancers	NHEK	skin
41	chr11:4002400-4004800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
42	chr11:4002400-4005600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr11:4002600-4007200	Enhancers	Thymus	Thymus
44	chr11:4002600-4009600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr11:4002800-4003800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
46	chr11:4002800-4004000	Weak transcription	Primary T cells from cord blood	blood
47	chr11:4002800-4005000	Enhancers	Dnd41	blood
48	chr11:4002800-4005400	Enhancers	Fetal Thymus	thymus
49	chr11:4002800-4006000	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr11:4002800-4006000	Weak transcription	NHDF-Ad	bronchial

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