Variant report

Variant	rs521580
Chromosome Location	chr1:166629608-166629609
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:166606674..166608700-chr1:166627422..166629735,2	MCF-7	breast:
2	chr1:166624683..166630041-chr1:166630762..166637027,8	K562	blood:

Variant related genes	Relation type
ENSG00000234984	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10737530	0.88[CEU][hapmap]
rs1372683	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1372684	0.84[EUR][1000 genomes]
rs1442500	0.88[CEU][hapmap]
rs1561844	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1899440	0.84[EUR][1000 genomes]
rs479799	0.84[EUR][1000 genomes]
rs486610	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs487459	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs488358	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs488426	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs489060	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs489144	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs491814	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs496879	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs503909	1.00[CEU][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs509587	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs510383	0.88[CEU][hapmap]
rs513797	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs513884	0.88[EUR][1000 genomes]
rs516754	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs526625	1.00[CEU][hapmap]
rs528088	0.89[EUR][1000 genomes]
rs529293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs531398	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs534733	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs536782	0.88[CEU][hapmap]
rs539458	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs539548	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs549764	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs565064	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs565210	0.85[CEU][hapmap]
rs566146	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs569407	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs577317	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs579671	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs6682466	0.84[EUR][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	nsv916491	chr1:166000783-166948513	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	esv2757759	chr1:166491879-166650985	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv2758975	chr1:166491879-166650985	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2752389	chr1:166625342-166706342	Bivalent Enhancer ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 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