Variant report

Variant	rs17689645
Chromosome Location	chr5:57020865-57020866
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10447121	0.80[EUR][1000 genomes]
rs10940574	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12514617	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12514618	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12515493	0.80[EUR][1000 genomes]
rs12517867	0.80[EUR][1000 genomes]
rs12520466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12522697	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12523004	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1544621	0.80[EUR][1000 genomes]
rs17689832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17746968	1.00[CHD][hapmap]
rs17747913	1.00[CHD][hapmap]
rs2160057	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2160058	0.80[EUR][1000 genomes]
rs2192367	0.82[EUR][1000 genomes]
rs2192368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2898027	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58632739	0.80[EUR][1000 genomes]
rs62358372	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62358374	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62358380	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62358381	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62361169	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6450432	0.80[EUR][1000 genomes]
rs6450433	0.80[EUR][1000 genomes]
rs6450434	0.80[EUR][1000 genomes]
rs6450435	0.80[EUR][1000 genomes]
rs6870485	0.82[EUR][1000 genomes]
rs6872726	1.00[CHD][hapmap]
rs6891648	0.80[EUR][1000 genomes]
rs6894116	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72767430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72767434	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72767441	0.81[EUR][1000 genomes]
rs72767444	0.80[EUR][1000 genomes]
rs741181	0.81[EUR][1000 genomes]
rs7718447	0.80[EUR][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	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2756302	chr5:56978143-57180143	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830310	chr5:56989346-57176006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2763454	chr5:57006531-57161140	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57016600-57021400	Weak transcription	Aorta	Aorta
2	chr5:57017000-57021400	Weak transcription	HSMMtube	muscle
3	chr5:57020000-57021000	Enhancers	NHLF	lung
4	chr5:57020000-57021600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:57020000-57021600	Enhancers	NHEK	skin
6	chr5:57020000-57021800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:57020000-57021800	Enhancers	HMEC	breast
8	chr5:57020000-57021800	Enhancers	HSMM	muscle
9	chr5:57020000-57021800	Enhancers	Osteobl	bone
10	chr5:57020200-57021200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr5:57020200-57021200	Enhancers	Muscle Satellite Cultured Cells	--
12	chr5:57020200-57021400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr5:57020200-57021400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr5:57020200-57022000	Enhancers	NHDF-Ad	bronchial
15	chr5:57020400-57021000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr5:57020400-57021800	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr5:57020400-57022000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr5:57020600-57021000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr5:57020600-57021000	Enhancers	NH-A	brain
20	chr5:57020800-57021400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr5:57020800-57021400	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr5:57020800-57022000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr5:57020800-57022000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links