Variant report

Variant	rs1882320
Chromosome Location	chr3:54814844-54814845
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10510773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12488046	0.88[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12490327	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12490953	0.93[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496821	1.00[CHB][hapmap]
rs13068008	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs13070262	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13083683	0.82[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs13084602	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13086256	0.93[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs13088416	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs13090131	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092066	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13095178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs13100029	0.86[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1344671	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1520575	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17815840	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1882322	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1921548	0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2099019	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3852006	0.80[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs3864001	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs3868872	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3906509	0.85[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs4025824	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4083342	1.00[JPT][hapmap]
rs6808464	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6809269	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6809715	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618235	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618991	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623961	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7636321	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54807600-54836000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:54812800-54815600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:54814600-54815200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:54814600-54816200	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links