Variant report

Variant	rs13171190
Chromosome Location	chr5:108147510-108147511
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11949314	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11949596	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11955045	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs13169856	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs13174393	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13174528	0.88[AMR][1000 genomes]
rs13177718	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13181901	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13183239	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs13183520	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13185815	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34188045	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34349846	0.88[AMR][1000 genomes]
rs34494089	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34609891	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34793372	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35137434	0.88[AMR][1000 genomes]
rs35238524	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35290386	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35316595	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs35603379	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs35746105	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35778913	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs35893408	0.88[AMR][1000 genomes]
rs35940503	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36047276	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36054201	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71586586	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71592766	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71592767	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71592769	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71592772	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs71592774	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv471039	chr5:108133967-108245089	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108124800-108149400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr5:108137600-108153000	Weak transcription	Osteobl	bone
3	chr5:108137800-108149000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr5:108138000-108153200	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr5:108140800-108152800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr5:108144400-108149000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:108145400-108153000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr5:108146000-108147800	ZNF genes & repeats	NHEK	skin
9	chr5:108146600-108156000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr5:108146800-108147600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:108146800-108150000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr5:108146800-108183600	Weak transcription	Ovary	ovary
13	chr5:108147000-108147800	Weak transcription	Lung	lung
14	chr5:108147000-108148200	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr5:108147000-108149000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr5:108147000-108150000	Weak transcription	Gastric	stomach
17	chr5:108147000-108150600	Weak transcription	Fetal Stomach	stomach
18	chr5:108147000-108153800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr5:108147000-108153800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr5:108147000-108165800	Weak transcription	Left Ventricle	heart
21	chr5:108147000-108198800	Weak transcription	Aorta	Aorta
22	chr5:108147000-108208800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr5:108147200-108147600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr5:108147200-108148000	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr5:108147200-108149000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr5:108147400-108147800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr5:108147400-108147800	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr5:108147400-108148000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr5:108147400-108150000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links