Variant report

Variant	rs16877954
Chromosome Location	chr5:59666806-59666807
allele	C/G
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:53)

rs_ID	r²[population]
rs10461373	0.89[CEU][hapmap]
rs10461452	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10461453	0.85[EUR][1000 genomes]
rs10514890	0.89[CEU][hapmap]
rs10514891	0.89[CEU][hapmap]
rs10514892	0.89[CEU][hapmap]
rs10514895	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs10514896	0.88[CEU][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs1108977	0.86[ASN][1000 genomes]
rs12188899	0.94[ASN][1000 genomes]
rs12653662	0.80[CEU][hapmap]
rs12656804	0.82[CEU][hapmap]
rs12656836	0.89[CEU][hapmap]
rs12656871	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs12659623	0.89[CEU][hapmap]
rs13158573	0.85[CEU][hapmap]
rs13178509	0.89[CEU][hapmap]
rs13185075	0.89[CEU][hapmap]
rs152312	0.93[JPT][hapmap]
rs16877859	1.00[CEU][hapmap]
rs16877926	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs16877953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16877976	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs173591	0.92[JPT][hapmap]
rs251726	0.92[JPT][hapmap]
rs26951	0.92[JPT][hapmap]
rs27224	0.83[JPT][hapmap]
rs2961773	0.88[CEU][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs2961774	0.87[CEU][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs34000941	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34761935	0.94[ASN][1000 genomes]
rs36043303	0.89[ASN][1000 genomes]
rs37686	0.81[ASN][1000 genomes]
rs37687	0.81[ASN][1000 genomes]
rs37692	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs37696	0.82[ASN][1000 genomes]
rs37704	0.82[ASN][1000 genomes]
rs37705	0.82[ASN][1000 genomes]
rs37706	0.82[ASN][1000 genomes]
rs37707	0.82[ASN][1000 genomes]
rs37708	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs37709	0.82[ASN][1000 genomes]
rs37761	1.00[JPT][hapmap]
rs37762	0.93[JPT][hapmap]
rs40219	0.93[JPT][hapmap]
rs42222	0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs4700373	0.87[CEU][hapmap]
rs615429	0.86[JPT][hapmap]
rs702552	0.86[JPT][hapmap]
rs702554	0.92[JPT][hapmap]
rs7711621	0.85[CEU][hapmap]
rs7718384	0.89[CEU][hapmap]
rs7735398	0.80[CEU][hapmap]

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	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv830316	chr5:59480269-59689829	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59647200-59694200	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59649400-59668200	Weak transcription	Gastric	stomach
3	chr5:59650400-59674800	Weak transcription	Aorta	Aorta
4	chr5:59661400-59668000	Weak transcription	HepG2	liver
5	chr5:59662600-59680200	Weak transcription	Stomach Smooth Muscle	stomach
6	chr5:59665400-59668000	Weak transcription	Pancreas	Pancrea
7	chr5:59666400-59667400	Enhancers	Stomach Mucosa	stomach
8	chr5:59666600-59668800	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr5:59666800-59667000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr5:59666800-59667000	Enhancers	Fetal Kidney	kidney

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