Variant report

Variant	rs533666
Chromosome Location	chr1:170162520-170162521
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10800500	0.81[CHB][hapmap];0.89[CHD][hapmap]
rs10800502	0.81[ASN][1000 genomes]
rs10800505	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10800506	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10919306	0.81[CHB][hapmap]
rs10919307	0.81[CHB][hapmap];0.90[CHD][hapmap];0.81[MEX][hapmap]
rs10919309	0.81[ASN][1000 genomes]
rs10919312	0.81[ASN][1000 genomes]
rs10919321	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10919322	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10919324	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11484822	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11484824	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12039113	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12569092	0.81[ASN][1000 genomes]
rs12751063	0.81[ASN][1000 genomes]
rs2901341	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35081369	0.81[ASN][1000 genomes]
rs4332407	0.81[CHB][hapmap]
rs477960	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs480667	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs495127	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs519459	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs550575	0.81[ASN][1000 genomes]
rs561326	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs562931	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs569357	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6427234	0.81[ASN][1000 genomes]
rs6427235	0.81[ASN][1000 genomes]
rs6427236	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6669514	0.81[ASN][1000 genomes]
rs7544677	0.81[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	nsv1014033	chr1:169968488-170453021	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats 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 miRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535200	chr1:169968488-170453021	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
3	nsv999310	chr1:170065943-170223350	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs533666	MGST3	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:170161400-170168000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:170162000-170163400	Weak transcription	Osteobl	bone
3	chr1:170162200-170163600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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