Variant report

Variant	rs16854588
Chromosome Location	chr3:143588335-143588336
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10433437	0.89[CHB][hapmap]
rs10513218	1.00[CEU][hapmap]
rs10513227	1.00[EUR][1000 genomes]
rs10513228	1.00[EUR][1000 genomes]
rs10513230	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10513231	0.86[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs10513232	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10513233	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11920369	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12497227	0.89[CHB][hapmap]
rs1394403	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1504605	0.85[JPT][hapmap]
rs16854417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854421	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854423	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854424	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854463	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854493	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16854503	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs16854525	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16854594	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16854626	1.00[CEU][hapmap]
rs16854639	0.89[ASN][1000 genomes]
rs17275413	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1823220	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1900643	0.89[CHB][hapmap]
rs1989180	0.89[CHB][hapmap]
rs2361199	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2361204	0.89[CHB][hapmap]
rs2361210	1.00[CEU][hapmap]
rs3935022	0.84[EUR][1000 genomes]
rs3935023	0.84[EUR][1000 genomes]
rs3935024	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4072487	0.84[EUR][1000 genomes]
rs4839613	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4839614	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839659	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839660	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839661	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839663	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839670	0.89[CHB][hapmap]
rs55734708	0.95[ASN][1000 genomes]
rs56954087	0.89[ASN][1000 genomes]
rs57853180	0.89[ASN][1000 genomes]
rs58491946	0.84[EUR][1000 genomes]
rs58917148	0.89[ASN][1000 genomes]
rs59089060	0.89[ASN][1000 genomes]
rs60153350	0.84[EUR][1000 genomes]
rs60230497	0.89[ASN][1000 genomes]
rs60765943	0.93[ASN][1000 genomes]
rs61195916	0.89[ASN][1000 genomes]
rs61534234	0.89[ASN][1000 genomes]
rs61574504	0.91[ASN][1000 genomes]
rs6440202	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes]
rs6763899	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6764661	0.89[CHB][hapmap]
rs6765414	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6769847	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6776336	0.89[CHB][hapmap]
rs6780983	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6792031	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6799226	0.82[JPT][hapmap]
rs6803662	1.00[CEU][hapmap]
rs6804065	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73008747	0.82[ASN][1000 genomes]
rs73010559	1.00[EUR][1000 genomes]
rs73010566	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73871853	0.95[ASN][1000 genomes]
rs73871854	0.95[ASN][1000 genomes]
rs73871855	0.95[ASN][1000 genomes]
rs73871858	0.89[ASN][1000 genomes]
rs73871859	0.89[ASN][1000 genomes]
rs73871860	0.89[ASN][1000 genomes]
rs73871861	0.89[ASN][1000 genomes]
rs7617512	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7617571	0.84[EUR][1000 genomes]
rs7621206	0.89[CHB][hapmap]
rs7628380	1.00[CEU][hapmap]
rs7628606	1.00[CEU][hapmap]
rs7650329	1.00[CEU][hapmap]
rs7651412	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7652644	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs924851	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs924852	0.84[EUR][1000 genomes]
rs924853	0.84[EUR][1000 genomes]
rs924854	0.84[EUR][1000 genomes]
rs924855	0.84[EUR][1000 genomes]
rs951594	0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs951595	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9822158	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9827103	0.89[CHB][hapmap]
rs9832471	0.89[CHB][hapmap]
rs9847107	0.89[CHB][hapmap]

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	nsv1009935	chr3:143497700-143610852	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143588200-143588400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:143588200-143589200	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr3:143588200-143589400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links