Variant report

Variant	rs667446
Chromosome Location	chr2:141098428-141098429
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:141096050..141098665-chr2:141100590..141102243,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12477489	0.82[ASW][hapmap]
rs12692042	0.89[CHB][hapmap]
rs12692048	0.87[AMR][1000 genomes]
rs12692049	0.87[CHB][hapmap]
rs12992137	1.00[CHB][hapmap];0.93[CHD][hapmap];0.83[MEX][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12996989	0.89[CHB][hapmap]
rs12999447	0.89[CHB][hapmap]
rs13001299	0.82[CHB][hapmap]
rs13002228	1.00[CHB][hapmap];0.93[CHD][hapmap];0.83[MEX][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13004107	0.89[CHB][hapmap];0.83[MEX][hapmap]
rs13009775	0.89[CHB][hapmap];0.81[CHD][hapmap]
rs13017246	0.88[CHB][hapmap];0.80[CHD][hapmap]
rs13021878	0.89[CHB][hapmap]
rs13382933	0.93[CHB][hapmap]
rs13386580	0.82[CHB][hapmap]
rs13407545	0.80[AMR][1000 genomes]
rs1386355	0.83[AMR][1000 genomes]
rs1401121	0.94[CHB][hapmap];0.87[CHD][hapmap]
rs1401122	0.94[CHB][hapmap]
rs1518450	1.00[CHB][hapmap];0.93[CHD][hapmap];0.83[MEX][hapmap];0.81[AMR][1000 genomes]
rs17385521	0.81[CHB][hapmap]
rs17477145	0.89[CHB][hapmap]
rs1968911	0.94[CHB][hapmap];0.87[CHD][hapmap]
rs2046563	0.94[CHB][hapmap];0.87[CHD][hapmap];0.82[MEX][hapmap];0.86[AMR][1000 genomes]
rs2046565	0.81[CHB][hapmap]
rs2945572	0.88[ASW][hapmap];0.92[CEU][hapmap];0.91[GIH][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35699793	0.94[CHB][hapmap];0.87[CHD][hapmap]
rs597222	0.94[CHB][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes]
rs598786	0.82[ASW][hapmap]
rs600802	0.82[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.87[MEX][hapmap];0.86[YRI][hapmap]
rs603956	0.88[YRI][hapmap]
rs607494	0.86[YRI][hapmap]
rs623670	0.87[MEX][hapmap];0.86[YRI][hapmap]
rs633689	0.94[CHB][hapmap];0.87[CHD][hapmap]
rs638198	0.92[CEU][hapmap]
rs639195	0.94[CHB][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs641780	0.80[CHB][hapmap]
rs6430898	1.00[CHB][hapmap]
rs649284	0.96[CEU][hapmap]
rs650706	0.94[ASW][hapmap];0.96[CEU][hapmap];0.88[GIH][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs651125	0.91[CEU][hapmap]
rs652923	0.94[CHB][hapmap];0.81[CHD][hapmap]
rs654051	0.88[ASW][hapmap];0.86[YRI][hapmap]
rs655308	0.94[ASW][hapmap];0.96[CEU][hapmap];0.91[GIH][hapmap];0.93[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs658631	0.94[CHB][hapmap]
rs6755087	0.83[CEU][hapmap]
rs682371	0.94[CHB][hapmap];0.84[CHD][hapmap];0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7563544	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs825429	0.82[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.87[MEX][hapmap];0.85[AMR][1000 genomes]

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	esv2754266	chr2:141023643-141270786	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv875185	chr2:141055080-141179257	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
3	nsv1002168	chr2:141056296-141157971	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

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