Variant report

Variant	rs9880992
Chromosome Location	chr3:21901704-21901705
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13315161	1.00[AMR][1000 genomes]
rs13318103	1.00[AMR][1000 genomes]
rs13321160	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13324522	1.00[AMR][1000 genomes]
rs13433695	1.00[AMR][1000 genomes]
rs17009864	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17009960	1.00[AMR][1000 genomes]
rs9810048	1.00[AMR][1000 genomes]
rs9812245	1.00[AMR][1000 genomes]
rs9820193	1.00[AMR][1000 genomes]
rs9821529	1.00[AMR][1000 genomes]
rs9822820	1.00[AMR][1000 genomes]
rs9824844	1.00[AMR][1000 genomes]
rs9826718	1.00[AMR][1000 genomes]
rs9836616	1.00[AMR][1000 genomes]
rs9843481	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9843487	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9843981	1.00[AMR][1000 genomes]
rs9845220	1.00[AMR][1000 genomes]
rs9847713	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9860705	1.00[AMR][1000 genomes]
rs9862765	1.00[AMR][1000 genomes]
rs9871392	1.00[AMR][1000 genomes]
rs9881684	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534005	chr3:21387588-22003293	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2751992	chr3:21786893-22212357	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv948555	chr3:21786893-22212357	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv834632	chr3:21803941-21974082	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1005321	chr3:21882336-21905631	Active TSS Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv1003085	chr3:21887971-22415107	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21899800-21902600	Weak transcription	Ovary	ovary
2	chr3:21900600-21902000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:21900800-21902000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:21901000-21902200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:21901200-21902000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:21901400-21902200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links