Variant report

Variant	rs7169509
Chromosome Location	chr15:60014228-60014229
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10152209	0.95[JPT][hapmap]
rs10152414	0.94[JPT][hapmap]
rs10152415	0.95[JPT][hapmap]
rs10162629	0.95[JPT][hapmap]
rs1046053	0.95[JPT][hapmap]
rs1057059	0.95[JPT][hapmap]
rs11071465	0.95[JPT][hapmap]
rs1135148	0.95[JPT][hapmap]
rs11854063	0.95[JPT][hapmap]
rs12902582	0.95[JPT][hapmap]
rs1552031	0.95[JPT][hapmap]
rs17236804	0.95[JPT][hapmap]
rs1871500	0.95[JPT][hapmap]
rs2306355	0.90[JPT][hapmap]
rs2306357	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs2307275	0.95[JPT][hapmap];0.81[MEX][hapmap]
rs28754340	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3087328	0.91[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs4232	0.95[JPT][hapmap]
rs4774340	0.95[JPT][hapmap]
rs4775195	0.95[JPT][hapmap];0.82[MEX][hapmap]
rs4775197	0.95[JPT][hapmap]
rs6151446	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs6151447	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs6151448	0.90[JPT][hapmap]
rs6151449	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs6151450	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6151458	0.95[JPT][hapmap]
rs6151461	0.95[JPT][hapmap]
rs6151462	0.95[JPT][hapmap];0.82[MEX][hapmap]
rs6151496	0.95[JPT][hapmap]
rs6151504	0.95[JPT][hapmap]
rs6151514	0.94[JPT][hapmap]
rs6151529	0.95[JPT][hapmap]
rs6151532	0.95[JPT][hapmap]
rs6151533	0.95[JPT][hapmap]
rs6151535	0.95[JPT][hapmap];0.82[MEX][hapmap]
rs6151536	1.00[JPT][hapmap]
rs6151545	0.95[JPT][hapmap]
rs6151568	0.95[JPT][hapmap]
rs6151571	0.94[JPT][hapmap]
rs6151586	0.95[JPT][hapmap]
rs6151588	0.95[JPT][hapmap]
rs6151589	0.95[JPT][hapmap]
rs62012499	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6494131	0.95[JPT][hapmap]
rs7164756	0.95[JPT][hapmap]
rs7180408	0.95[JPT][hapmap]
rs7182962	0.95[JPT][hapmap]
rs754642	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs8041394	0.95[JPT][hapmap]

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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7169509	NARG2	cis	parietal	SCAN
rs7169509	GTF2A2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60013600-60014400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:60014200-60014400	Enhancers	Psoas Muscle	Psoas
3	chr15:60014200-60015000	Enhancers	Skeletal Muscle Female	skeletal muscle

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