Variant report

Variant	rs16929492
Chromosome Location	chr11:4046476-4046477
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10430939	0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs10458900	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10500591	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs10500592	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10500593	1.00[AFR][1000 genomes]
rs11030251	0.86[ASN][1000 genomes]
rs11030286	0.86[ASN][1000 genomes]
rs11030326	1.00[ASW][hapmap];0.82[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.84[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11030327	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs11030366	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs11030417	0.86[ASN][1000 genomes]
rs11030418	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[ASN][1000 genomes]
rs11030453	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.84[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11030478	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs11030479	0.90[ASN][1000 genomes]
rs11030481	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs11030484	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs11030485	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs11030486	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.84[MEX][hapmap];0.90[ASN][1000 genomes]
rs11030697	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030796	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11525342	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11529865	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12222250	0.82[CEU][hapmap];0.88[CHB][hapmap];0.86[ASN][1000 genomes]
rs12224469	0.83[ASN][1000 genomes]
rs1372803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929410	0.94[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16929438	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16929467	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16929477	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929480	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16929529	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs16929531	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[ASN][1000 genomes]
rs16929538	1.00[CEU][hapmap];0.84[CHB][hapmap];0.90[ASN][1000 genomes]
rs16929540	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs16929542	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[CHD][hapmap];0.84[MEX][hapmap];0.87[ASN][1000 genomes]
rs16929546	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[ASN][1000 genomes]
rs16929611	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs16929616	0.82[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.84[MEX][hapmap];0.86[ASN][1000 genomes]
rs16929653	0.82[CEU][hapmap];0.82[CHB][hapmap];0.81[CHD][hapmap]
rs1822286	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1899478	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2167563	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs2284449	0.82[CHB][hapmap]
rs3750994	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4910878	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs55679086	0.90[ASN][1000 genomes]
rs55978228	0.90[ASN][1000 genomes]
rs56126231	0.86[ASN][1000 genomes]
rs56140937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59195871	0.84[ASN][1000 genomes]
rs59242983	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs61897162	0.85[ASN][1000 genomes]
rs61897163	0.86[ASN][1000 genomes]
rs61897164	0.86[ASN][1000 genomes]
rs61897166	0.87[ASN][1000 genomes]
rs61897167	0.85[ASN][1000 genomes]
rs61897170	0.87[ASN][1000 genomes]
rs61897171	0.87[ASN][1000 genomes]
rs61897194	0.87[ASN][1000 genomes]
rs61897195	0.86[ASN][1000 genomes]
rs61897201	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs61897202	0.90[ASN][1000 genomes]
rs61897206	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61897234	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61897237	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61897238	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61897254	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61899662	0.81[AMR][1000 genomes]
rs6578423	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.87[ASN][1000 genomes]
rs720106	0.82[CHB][hapmap]
rs723779	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs72851736	0.90[ASN][1000 genomes]
rs750526	0.82[CEU][hapmap];0.88[CHB][hapmap];0.86[ASN][1000 genomes]
rs7928117	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap]
rs7934581	1.00[CEU][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.92[ASN][1000 genomes]
rs7941743	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs894454	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[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	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
2	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
3	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1042719	chr11:4017541-4101609	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4038000-4049400	Weak transcription	Spleen	Spleen
2	chr11:4038200-4048800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr11:4038200-4057200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr11:4038200-4065200	Weak transcription	Left Ventricle	heart
5	chr11:4038400-4065400	Weak transcription	Esophagus	oesophagus
6	chr11:4038800-4050000	Weak transcription	K562	blood
7	chr11:4039200-4056400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr11:4040200-4046800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr11:4040200-4049600	Weak transcription	A549	lung
10	chr11:4041000-4046600	Weak transcription	NHEK	skin
11	chr11:4041600-4046800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr11:4041800-4054600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:4043400-4047000	Strong transcription	Primary T cells from cord blood	blood
14	chr11:4043400-4051200	Weak transcription	Liver	Liver
15	chr11:4043600-4048000	Strong transcription	Thymus	Thymus
16	chr11:4043600-4049400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr11:4044000-4048200	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr11:4044200-4047000	Weak transcription	Osteobl	bone
19	chr11:4044200-4047200	Weak transcription	Brain Hippocampus Middle	brain
20	chr11:4044200-4050200	Strong transcription	Fetal Thymus	thymus
21	chr11:4044400-4048200	Strong transcription	Dnd41	blood
22	chr11:4044400-4049200	Strong transcription	Primary B cells from peripheral blood	blood
23	chr11:4044600-4048000	Weak transcription	Small Intestine	intestine
24	chr11:4044800-4046600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr11:4044800-4049000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr11:4045000-4047800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr11:4045000-4048400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
28	chr11:4045000-4048400	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr11:4045000-4048400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr11:4045000-4049000	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr11:4045000-4049800	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr11:4045000-4051200	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr11:4045200-4047400	Strong transcription	Primary neutrophils fromperipheralblood	blood
34	chr11:4045200-4048200	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr11:4045200-4048400	Strong transcription	Primary B cells from cord blood	blood
36	chr11:4045200-4048400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr11:4045200-4049200	Enhancers	Fetal Heart	heart
38	chr11:4045400-4047200	Enhancers	Fetal Muscle Leg	muscle
39	chr11:4045400-4047400	Enhancers	Psoas Muscle	Psoas
40	chr11:4045400-4049600	Enhancers	Fetal Stomach	stomach
41	chr11:4045600-4047400	Weak transcription	Colonic Mucosa	Colon
42	chr11:4045600-4048000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr11:4045600-4048000	Weak transcription	Ovary	ovary
44	chr11:4045600-4048400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr11:4045600-4048400	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr11:4045600-4049200	Enhancers	Fetal Lung	lung
47	chr11:4045600-4049600	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr11:4045800-4046600	Enhancers	Aorta	Aorta
49	chr11:4045800-4046600	Enhancers	HUVEC	blood vessel
50	chr11:4045800-4047200	Strong transcription	GM12878-XiMat	blood

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