Variant report

Variant	rs2236873
Chromosome Location	chr1:171084712-171084713
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10797877	0.80[ASN][1000 genomes]
rs10911192	0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs10911839	0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10911841	0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11811455	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12076145	0.82[ASN][1000 genomes]
rs16864096	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1920144	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1920149	0.82[ASN][1000 genomes]
rs1920151	0.82[EUR][1000 genomes]
rs1920152	0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1920153	0.82[EUR][1000 genomes]
rs1920154	0.82[EUR][1000 genomes]
rs2064079	0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2064080	0.84[CHB][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2235193	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2236872	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281003	0.82[CHB][hapmap]
rs67727346	0.82[ASN][1000 genomes]
rs909530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001228	chr1:170885787-171452579	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
2	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1005902	chr1:171036690-171254916	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv535203	chr1:171036690-171254916	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2236873	FMO2	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171080800-171086200	Weak transcription	Fetal Stomach	stomach
2	chr1:171081400-171085800	Weak transcription	Fetal Lung	lung
3	chr1:171082200-171087800	Genic enhancers	Liver	Liver
4	chr1:171083200-171085600	Enhancers	Adipose Nuclei	Adipose
5	chr1:171083400-171085800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:171083400-171086200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:171084200-171092200	Weak transcription	Small Intestine	intestine
8	chr1:171084400-171085000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:171084600-171084800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:171084600-171086200	Weak transcription	Aorta	Aorta

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