Variant report

Variant	rs779985
Chromosome Location	chr2:125004689-125004690
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10496635	0.87[CHD][hapmap]
rs11123030	0.90[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap];0.84[MEX][hapmap]
rs1170578	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1170605	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1170606	0.95[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs1170610	0.95[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs1170615	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1170616	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1170617	0.95[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs1170622	0.94[CHB][hapmap];0.87[JPT][hapmap];0.93[ASN][1000 genomes]
rs1170623	0.94[CHB][hapmap];0.81[JPT][hapmap];0.92[ASN][1000 genomes]
rs1170624	0.95[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs1170625	0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs1170627	0.95[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs1170628	0.95[CHB][hapmap];0.92[CHD][hapmap];0.82[JPT][hapmap]
rs1170631	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs1186066	0.95[JPT][hapmap]
rs1186396	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.91[YRI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2163249	0.90[CHB][hapmap];0.87[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap]
rs2565770	0.82[EUR][1000 genomes]
rs2699377	0.81[JPT][hapmap]
rs6541945	0.90[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs7560777	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs779976	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap]
rs779977	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap]
rs779994	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs779995	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs779996	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs779997	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.91[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs780020	0.80[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.80[TSI][hapmap]
rs780023	0.84[CHB][hapmap];0.80[JPT][hapmap]
rs780025	0.88[CHB][hapmap];0.95[JPT][hapmap]
rs780026	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs780028	0.82[EUR][1000 genomes]
rs780029	0.86[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes]
rs780030	0.88[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes]
rs780031	0.80[CEU][hapmap];0.90[CHB][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs780032	0.80[CEU][hapmap];0.90[CHB][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs780033	0.80[CEU][hapmap];0.90[CHB][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs780034	0.90[JPT][hapmap]
rs780040	0.98[ASN][1000 genomes]
rs780041	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs780042	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs780044	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs780050	0.80[CEU][hapmap];0.90[CHB][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap]
rs780051	0.90[JPT][hapmap]
rs780052	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs796643	0.80[CEU][hapmap];0.90[CHB][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs796644	0.80[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs801923	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs809053	0.99[ASN][1000 genomes]
rs811901	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs891409	0.85[CHB][hapmap];0.89[CHD][hapmap]
rs891410	0.95[CHB][hapmap];0.86[JPT][hapmap]

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:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links