Variant report

Variant	rs28429534
Chromosome Location	chr4:86582626-86582627
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs28871342	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6531840	1.00[AMR][1000 genomes]
rs6813231	1.00[AMR][1000 genomes]
rs6814544	1.00[AMR][1000 genomes]
rs6815200	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6816066	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6827386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6827564	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6858619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6858779	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7654408	1.00[AMR][1000 genomes]
rs7657112	1.00[AMR][1000 genomes]
rs7657712	1.00[AMR][1000 genomes]
rs7662585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7663051	1.00[AFR][1000 genomes]
rs7667098	1.00[AMR][1000 genomes]
rs7671828	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7672626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7672782	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7673815	1.00[AMR][1000 genomes]
rs7685260	1.00[AMR][1000 genomes]
rs7685271	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7688778	1.00[AMR][1000 genomes]
rs7689198	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7689606	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690114	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690209	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	esv3450999	chr4:86485840-86773745	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
6	nsv829999	chr4:86500257-86666019	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	2 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	chr4:86561800-86582800	Weak transcription	K562	blood
2	chr4:86570200-86593600	Weak transcription	HSMM	muscle
3	chr4:86580400-86593000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr4:86582400-86583400	Enhancers	Primary B cells from peripheral blood	blood
5	chr4:86582400-86590000	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr4:86582600-86589200	Weak transcription	Primary B cells from cord blood	blood
7	chr4:86582600-86589600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr4:86582600-86590200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links