Variant report

Variant	rs3862579
Chromosome Location	chr10:52948391-52948392
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10822299	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10995918	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1871630	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904676	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1904677	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1904683	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1904687	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904688	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904689	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904692	0.90[ASN][1000 genomes]
rs1904693	0.90[ASN][1000 genomes]
rs1904695	0.90[ASN][1000 genomes]
rs1904696	0.90[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs2339731	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2339732	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3851088	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3862576	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3998228	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4505006	0.91[ASN][1000 genomes]
rs6479991	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7068022	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7085697	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7893773	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9414844	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9415733	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9633538	0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52936800-52964400	Weak transcription	NHLF	lung
2	chr10:52942600-52948600	Weak transcription	Right Ventricle	heart
3	chr10:52946000-52949000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr10:52946400-52964400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr10:52946600-52948400	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:52946600-52948600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr10:52946600-52950200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:52946600-52955600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr10:52947200-52949200	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr10:52947400-52948600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:52947600-52948800	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr10:52947800-52948800	Enhancers	Psoas Muscle	Psoas
13	chr10:52947800-52950400	Enhancers	Aorta	Aorta
14	chr10:52948000-52948800	Enhancers	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links