Variant report

Variant	rs17153461
Chromosome Location	chr11:58989046-58989047
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1048444	0.96[CEU][hapmap];0.91[JPT][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10792228	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10896953	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10896956	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10896958	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11229896	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11229898	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11229899	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11600294	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12280107	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1938593	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1945592	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1945593	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2000875	0.89[ASW][hapmap];0.96[CEU][hapmap];0.91[JPT][hapmap];0.85[LWK][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3847	0.96[CEU][hapmap];0.91[JPT][hapmap];0.98[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4938915	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4939260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4939263	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4939267	0.96[CEU][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs5023474	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5023475	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61689139	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6591510	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6591515	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6591517	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7109866	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7111287	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7113607	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7121247	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7129035	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7129362	0.86[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7931234	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7938115	0.90[AMR][1000 genomes];0.91[EUR][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	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv2758272	chr11:58700092-59008673	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv2759830	chr11:58700092-59008673	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	esv1821250	chr11:58925860-59059179	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	esv3351601	chr11:58979308-59052763	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:58976000-58989400	Weak transcription	Stomach Mucosa	stomach
2	chr11:58979200-58989600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:58980400-58991200	Weak transcription	Fetal Muscle Leg	muscle
4	chr11:58981000-58991600	Weak transcription	Spleen	Spleen
5	chr11:58984400-58990600	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr11:58984600-58990600	Weak transcription	Placenta	Placenta
7	chr11:58984600-58990600	Weak transcription	Fetal Thymus	thymus
8	chr11:58985000-58989600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr11:58985000-58990600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr11:58985000-58991600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr11:58985000-58993200	Enhancers	Primary B cells from peripheral blood	blood
12	chr11:58985200-58989600	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr11:58985200-58990000	Enhancers	Primary B cells from cord blood	blood
14	chr11:58986000-58989600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr11:58986000-58991200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr11:58986800-58991200	Enhancers	GM12878-XiMat	blood
17	chr11:58987000-58991800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr11:58987200-58989800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:58987200-58990200	Enhancers	Osteobl	bone
20	chr11:58987200-58992600	Enhancers	NHLF	lung
21	chr11:58987400-58992600	Enhancers	NHDF-Ad	bronchial
22	chr11:58987800-58990000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr11:58988000-58989600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr11:58988200-58989800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr11:58988200-58989800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr11:58988200-58989800	Enhancers	NHEK	skin
27	chr11:58988200-58990000	Enhancers	Primary hematopoietic stem cells	blood
28	chr11:58988200-58990000	Enhancers	HMEC	breast
29	chr11:58988200-58990200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr11:58988400-58989600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr11:58988400-58990000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr11:58988400-58994000	Enhancers	Adipose Nuclei	Adipose
33	chr11:58988600-58989200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr11:58988600-58989800	Enhancers	Hela-S3	cervix
35	chr11:58988600-58989800	Enhancers	HSMM	muscle
36	chr11:58988600-58990200	Enhancers	Colon Smooth Muscle	Colon
37	chr11:58988600-58991400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr11:58988800-58989600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr11:58988800-58989600	Enhancers	A549	lung
40	chr11:58988800-58990600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr11:58988800-58993000	Weak transcription	Lung	lung
42	chr11:58989000-58989600	Weak transcription	Fetal Stomach	stomach
43	chr11:58989000-58990000	Enhancers	Muscle Satellite Cultured Cells	--
44	chr11:58989000-58991200	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr11:58989000-58991600	Weak transcription	Left Ventricle	heart

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