Variant report

Variant	rs10056275
Chromosome Location	chr5:59829465-59829466
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10078847	0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs16877986	1.00[MEX][hapmap]
rs16878165	1.00[ASN][1000 genomes]
rs2061251	1.00[ASN][1000 genomes]
rs28531078	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3857235	0.98[AFR][1000 genomes]
rs56679922	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449475	0.98[AFR][1000 genomes]
rs6860925	1.00[ASN][1000 genomes]
rs6879253	1.00[ASN][1000 genomes]
rs6882049	1.00[ASN][1000 genomes]
rs6889130	1.00[ASN][1000 genomes]
rs6891919	0.98[AFR][1000 genomes]
rs6898521	0.97[AFR][1000 genomes]
rs73106785	1.00[ASN][1000 genomes]
rs73759341	1.00[ASN][1000 genomes]
rs7700547	1.00[ASN][1000 genomes]
rs7707672	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7708284	1.00[ASN][1000 genomes]
rs7712117	0.86[AFR][1000 genomes]
rs7723306	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs7724442	0.98[AFR][1000 genomes]
rs7727343	0.86[AFR][1000 genomes]
rs9291692	0.98[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
3	nsv1018614	chr5:59708223-59910308	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv881711	chr5:59724947-59890278	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv598297	chr5:59734004-59862453	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59824000-59834200	Weak transcription	Brain Angular Gyrus	brain
2	chr5:59828000-59834800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:59828000-59837000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:59828400-59829600	Enhancers	GM12878-XiMat	blood
5	chr5:59828600-59830000	Enhancers	HepG2	liver
6	chr5:59829000-59829600	Enhancers	Primary B cells from cord blood	blood
7	chr5:59829000-59831800	Enhancers	Primary B cells from peripheral blood	blood
8	chr5:59829200-59829600	Flanking Active TSS	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links