Variant report

Variant	rs16830241
Chromosome Location	chr3:159074050-159074051
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11914905	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917829	0.82[ASW][hapmap];0.89[LWK][hapmap];0.96[YRI][hapmap]
rs11920486	1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11922548	1.00[EUR][1000 genomes]
rs11922600	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066122	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs13070853	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs13085667	1.00[JPT][hapmap]
rs1449002	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16830144	1.00[CEU][hapmap]
rs16830150	1.00[CHD][hapmap]
rs28706045	1.00[ASN][1000 genomes]
rs56264622	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58015192	1.00[EUR][1000 genomes]
rs60532575	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61378344	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61793163	1.00[EUR][1000 genomes]
rs61793164	1.00[EUR][1000 genomes]
rs61795190	0.89[EUR][1000 genomes]
rs61795191	1.00[EUR][1000 genomes]
rs61795196	1.00[EUR][1000 genomes]
rs61795203	1.00[EUR][1000 genomes]
rs61795204	1.00[EUR][1000 genomes]
rs61795245	1.00[EUR][1000 genomes]
rs61795248	1.00[EUR][1000 genomes]
rs61795249	1.00[EUR][1000 genomes]
rs61795255	1.00[EUR][1000 genomes]
rs61795446	1.00[EUR][1000 genomes]
rs61795447	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61796065	1.00[EUR][1000 genomes]
rs61796066	1.00[EUR][1000 genomes]
rs61796067	1.00[EUR][1000 genomes]
rs61796069	1.00[EUR][1000 genomes]
rs61796070	1.00[EUR][1000 genomes]
rs61796097	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6761991	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6781285	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6795419	1.00[CEU][hapmap]
rs6797832	1.00[CEU][hapmap]
rs73031457	1.00[ASN][1000 genomes]
rs7629027	1.00[EUR][1000 genomes]
rs7644770	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs870852	0.94[ASW][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9848831	1.00[JPT][hapmap]
rs9864232	1.00[ASN][1000 genomes]

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	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv470971	chr3:158590928-159158217	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 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	chr3:159073000-159074200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:159073400-159074400	Weak transcription	Brain Substantia Nigra	brain
3	chr3:159073800-159076400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:159074000-159075400	Enhancers	Brain Angular Gyrus	brain
5	chr3:159074000-159075400	Enhancers	Brain Hippocampus Middle	brain
6	chr3:159074000-159075400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:159074000-159075800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:159074000-159076400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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