Variant report

Variant	rs6450501
Chromosome Location	chr5:58360286-58360287
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10066573	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10068543	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13175380	0.84[EUR][1000 genomes]
rs13183985	0.90[EUR][1000 genomes]
rs35859105	0.84[EUR][1000 genomes]
rs6450502	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6864156	0.97[EUR][1000 genomes]
rs6889456	0.97[EUR][1000 genomes]
rs71626132	0.97[EUR][1000 genomes]
rs71626133	0.97[EUR][1000 genomes]
rs986067	0.90[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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830312	chr5:58191579-58382226	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv830313	chr5:58273724-58421098	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1032308	chr5:58312468-58371239	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58336200-58375600	Weak transcription	Left Ventricle	heart
2	chr5:58338800-58362000	Weak transcription	Gastric	stomach
3	chr5:58339000-58365200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr5:58348200-58362000	Weak transcription	Psoas Muscle	Psoas
5	chr5:58349600-58360600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr5:58356400-58360800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr5:58356600-58360800	Enhancers	HepG2	liver
8	chr5:58357200-58360400	Enhancers	Colon Smooth Muscle	Colon
9	chr5:58357400-58360600	Flanking Active TSS	A549	lung
10	chr5:58357600-58362000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr5:58358000-58360600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:58358000-58361400	Weak transcription	NHEK	skin
13	chr5:58358200-58364200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr5:58358200-58365000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr5:58358400-58361400	Enhancers	NHDF-Ad	bronchial
16	chr5:58358400-58362400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:58358600-58360400	Enhancers	Adipose Nuclei	Adipose
18	chr5:58358600-58362600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr5:58358600-58362800	Enhancers	Osteobl	bone
20	chr5:58359400-58365200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr5:58359600-58364800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr5:58359800-58363200	Weak transcription	Fetal Lung	lung
23	chr5:58360000-58360600	Genic enhancers	Hela-S3	cervix
24	chr5:58360200-58360400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr5:58360200-58360400	Enhancers	Fetal Stomach	stomach
26	chr5:58360200-58360400	Enhancers	Pancreas	Pancrea
27	chr5:58360200-58360600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr5:58360200-58360600	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr5:58360200-58360800	Enhancers	HMEC	breast
30	chr5:58360200-58361800	Enhancers	Muscle Satellite Cultured Cells	--
31	chr5:58360200-58366000	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links