Variant report

Variant	rs62192845
Chromosome Location	chr2:231439804-231439805
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:231439727-231439861	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
TPM3P8	TF binding region

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1051223	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11676240	0.87[EUR][1000 genomes]
rs11682065	0.87[EUR][1000 genomes]
rs11682119	0.82[EUR][1000 genomes]
rs11682758	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11683686	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11683812	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11686836	0.82[EUR][1000 genomes]
rs11686960	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11687011	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11687105	0.86[EUR][1000 genomes]
rs11688621	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11692123	0.81[EUR][1000 genomes]
rs11693931	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11693933	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11694980	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13408474	0.83[ASN][1000 genomes]
rs13418392	0.83[ASN][1000 genomes]
rs17276229	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17276271	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17276306	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1808521	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1966975	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1966976	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2396762	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2396763	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2396764	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55677537	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55711997	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55721320	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55795378	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55913752	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55955122	0.84[EUR][1000 genomes]
rs56007290	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56187540	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56246275	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56285812	0.86[EUR][1000 genomes]
rs56295541	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56317111	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57193071	0.88[ASN][1000 genomes]
rs57793329	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58209772	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58541541	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59407020	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61329403	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61579817	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62192832	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192834	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192835	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192836	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192837	0.86[ASN][1000 genomes]
rs62192838	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192839	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62192846	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62195481	0.87[EUR][1000 genomes]
rs62195483	0.87[EUR][1000 genomes]
rs62195484	0.87[EUR][1000 genomes]
rs62195486	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62195489	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62195490	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62195511	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62195512	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6436947	0.91[EUR][1000 genomes]
rs66521108	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6717191	0.91[EUR][1000 genomes]
rs6720383	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6730737	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6746779	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6749311	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6749431	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6750183	0.86[EUR][1000 genomes]
rs6754406	0.82[ASN][1000 genomes]
rs6759529	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6759540	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6761716	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs67979132	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs68007066	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7561174	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7561418	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7575130	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7587870	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs890678	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9711902	0.86[ASN][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	esv18000	chr2:231072978-231467847	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv875953	chr2:231415189-231457819	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv875954	chr2:231421531-231441828	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv11055	chr2:231437916-231440779	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region lncRNA	1 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	chr2:231436600-231440000	Weak transcription	Primary T cells from cord blood	blood
2	chr2:231439400-231440800	ZNF genes & repeats	GM12878-XiMat	blood
3	chr2:231439800-231440200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr2:231439800-231440600	Enhancers	Placenta	Placenta
5	chr2:231439800-231440800	Enhancers	Fetal Thymus	thymus
6	chr2:231439800-231443800	Enhancers	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links