Variant report

Variant	rs1540892
Chromosome Location	chr2:124921566-124921567
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10181162	1.00[AMR][1000 genomes]
rs10196297	1.00[AMR][1000 genomes]
rs10204261	1.00[AMR][1000 genomes]
rs1213959	1.00[AMR][1000 genomes]
rs12470976	1.00[AMR][1000 genomes]
rs12711668	1.00[ASW][hapmap];0.81[LWK][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12711669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12711670	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13382328	1.00[AMR][1000 genomes]
rs13412940	1.00[AMR][1000 genomes]
rs13421371	1.00[AMR][1000 genomes]
rs13429933	1.00[AMR][1000 genomes]
rs1358670	0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358671	1.00[ASW][hapmap];0.91[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358672	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358673	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358674	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1358676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1406659	1.00[ASW][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1529293	0.89[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1529300	1.00[AMR][1000 genomes]
rs1529302	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1529303	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1529304	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1529305	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1569274	0.83[MKK][hapmap]
rs1881793	1.00[YRI][hapmap]
rs1919834	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919835	1.00[ASW][hapmap];0.90[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap]
rs1919836	1.00[ASW][hapmap];1.00[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap]
rs1919844	0.89[YRI][hapmap]
rs1919845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919846	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919847	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919849	1.00[ASW][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2141541	1.00[AMR][1000 genomes]
rs2439004	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2565757	1.00[AMR][1000 genomes]
rs2565758	1.00[AMR][1000 genomes]
rs2579815	0.84[YRI][hapmap]
rs2579822	0.89[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699368	1.00[ASW][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699369	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699370	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699371	0.89[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2699373	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4241118	0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs4505528	1.00[AMR][1000 genomes]
rs4630769	0.90[YRI][hapmap]
rs6541937	0.90[YRI][hapmap]
rs6731948	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs6740328	1.00[AMR][1000 genomes]
rs6747933	1.00[AMR][1000 genomes]
rs6760870	0.81[YRI][hapmap]
rs7567589	1.00[AMR][1000 genomes]
rs7579069	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[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	nsv531408	chr2:124727329-125011247	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv874989	chr2:124892592-125176030	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:124919800-124921600	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr2:124920000-124922000	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr2:124920600-124921800	Enhancers	H9 Cell Line	embryonic stem cell
4	chr2:124920600-124921800	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr2:124920600-124922600	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr2:124920800-124921800	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr2:124920800-124922000	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr2:124920800-124922000	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr2:124920800-124923800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr2:124921000-124921800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr2:124921000-124921800	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links