Variant report

Variant	rs1491686
Chromosome Location	chr3:70092287-70092288
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1021413	0.94[JPT][hapmap]
rs1027233	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1027234	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1157456	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11923682	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11926368	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12495230	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1388649	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1491695	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1491698	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1492055	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1492056	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1546075	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1873583	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1873584	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2131122	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2172211	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs28524674	0.87[AMR][1000 genomes]
rs3821364	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs4855453	0.94[JPT][hapmap]
rs4855454	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs4855455	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs6549261	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6549262	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6549264	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6549265	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6549266	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6772684	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6784666	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6809508	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs704246	0.89[JPT][hapmap]
rs7634340	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7634564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7647661	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7651972	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9310178	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9310179	1.00[CEU][hapmap];0.84[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9310180	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs956436	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9809122	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9815287	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9834141	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9839734	0.87[AMR][1000 genomes]
rs9840397	0.87[AMR][1000 genomes]
rs9840590	0.87[AMR][1000 genomes]
rs9840951	0.82[AMR][1000 genomes]
rs9849031	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9851891	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9863457	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9868203	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1491686	RP11-460N16.1	cis	Artery Aorta	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:70063800-70098000	Weak transcription	Aorta	Aorta
2	chr3:70090000-70093600	Weak transcription	Brain Anterior Caudate	brain
3	chr3:70091000-70092800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:70091000-70093800	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:70091200-70093400	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr3:70091600-70092400	Enhancers	Brain Hippocampus Middle	brain
7	chr3:70091600-70093400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr3:70092000-70092400	Active TSS	Brain Cingulate Gyrus	brain
9	chr3:70092000-70092400	Active TSS	Brain Substantia Nigra	brain
10	chr3:70092000-70093000	Enhancers	Fetal Brain Female	brain
11	chr3:70092000-70105000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:70092200-70092600	Active TSS	Brain Angular Gyrus	brain

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