Variant report

Variant	rs909530
Chromosome Location	chr1:171083174-171083175
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10797877	0.80[ASN][1000 genomes]
rs10911192	0.82[CHD][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs10911839	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10911841	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1157459	0.85[GIH][hapmap]
rs11811455	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12076145	0.82[ASN][1000 genomes]
rs16864094	0.85[GIH][hapmap]
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	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1920153	0.82[EUR][1000 genomes]
rs1920154	0.82[EUR][1000 genomes]
rs2064079	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2064080	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.96[TSI][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]
rs2236873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281004	0.85[GIH][hapmap]
rs67727346	0.82[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
rs909530	FMO2	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171080200-171083200	Weak transcription	Aorta	Aorta
2	chr1:171080800-171083200	Weak transcription	Right Atrium	heart
3	chr1:171080800-171086200	Weak transcription	Fetal Stomach	stomach
4	chr1:171081000-171083400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:171081200-171083200	Weak transcription	Adipose Nuclei	Adipose
6	chr1:171081400-171085800	Weak transcription	Fetal Lung	lung
7	chr1:171081600-171083400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr1:171082000-171083400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:171082000-171084400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr1:171082200-171083200	Enhancers	NHLF	lung
11	chr1:171082200-171087800	Genic enhancers	Liver	Liver
12	chr1:171082400-171083200	Enhancers	Muscle Satellite Cultured Cells	--
13	chr1:171082800-171083200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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