Variant report

Variant	rs6548625
Chromosome Location	chr3:79563987-79563988
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11707288	0.88[CEU][hapmap]
rs13080611	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13084871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4263255	0.90[CHB][hapmap];0.81[EUR][1000 genomes]
rs4279056	0.84[CEU][hapmap]
rs4361245	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs4389443	0.87[CEU][hapmap]
rs4527338	0.88[CEU][hapmap]
rs4998490	0.85[CEU][hapmap]
rs6548622	0.90[CHB][hapmap];0.82[EUR][1000 genomes]
rs6548623	0.82[EUR][1000 genomes]
rs6548624	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs6548626	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6548627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770483	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs6777529	0.81[EUR][1000 genomes]
rs7612183	0.89[CHB][hapmap]
rs7614913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615149	0.90[CHB][hapmap];0.81[EUR][1000 genomes]
rs7617476	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7626242	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815393	0.88[CEU][hapmap]
rs9826366	0.83[CEU][hapmap]
rs9842315	0.84[CEU][hapmap]
rs9848224	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs9848827	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9852990	0.83[CEU][hapmap]
rs9853895	0.88[CEU][hapmap]
rs9857859	0.88[CEU][hapmap]
rs9869846	0.85[CEU][hapmap]
rs9871445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834747	chr3:79441211-79591923	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	esv3394288	chr3:79545122-79715746	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
3	nsv877021	chr3:79560604-79892470	Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79563000-79564200	Enhancers	Fetal Lung	lung
2	chr3:79563200-79564200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:79563200-79564200	Enhancers	Fetal Brain Male	brain
4	chr3:79563200-79564600	Enhancers	Fetal Heart	heart
5	chr3:79563200-79564800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:79563200-79565000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:79563400-79564000	Enhancers	Brain Germinal Matrix	brain
8	chr3:79563800-79564600	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links