Variant report

Variant	rs17366198
Chromosome Location	chr2:183018480-183018481
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10201929	0.80[EUR][1000 genomes]
rs10930994	0.82[EUR][1000 genomes]
rs13034133	0.92[CEU][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.81[EUR][1000 genomes]
rs1344773	0.92[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1347079	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs1432517	0.82[EUR][1000 genomes]
rs1432518	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs1432519	0.92[CEU][hapmap]
rs1432520	0.88[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.81[MEX][hapmap];0.83[EUR][1000 genomes]
rs1432521	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.81[MEX][hapmap];0.82[EUR][1000 genomes]
rs1432533	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs1594614	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs17366503	0.83[CEU][hapmap];0.84[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.85[MEX][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17457164	0.96[CEU][hapmap];0.84[CHB][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17457303	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17457323	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17595927	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1835880	0.83[EUR][1000 genomes]
rs1835881	0.92[CEU][hapmap];0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs1864847	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs1864848	0.81[EUR][1000 genomes]
rs1864849	0.82[EUR][1000 genomes]
rs1864850	0.82[EUR][1000 genomes]
rs1864851	0.89[EUR][1000 genomes]
rs1864852	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs1864854	0.92[CEU][hapmap]
rs2128045	0.92[CEU][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs2128046	0.83[EUR][1000 genomes]
rs2128047	0.83[EUR][1000 genomes]
rs2170402	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.82[EUR][1000 genomes]
rs2170403	0.92[CEU][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs2195880	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2217614	0.86[EUR][1000 genomes]
rs2276612	0.92[CEU][hapmap];0.84[CHB][hapmap];0.83[YRI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2368255	0.92[CEU][hapmap];0.84[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];0.95[MEX][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2368276	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs2568660	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs2568661	0.83[EUR][1000 genomes]
rs2568663	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs2568664	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs2568667	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs2568672	0.81[EUR][1000 genomes]
rs2568673	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2568674	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2568676	0.82[EUR][1000 genomes]
rs2568682	0.82[EUR][1000 genomes]
rs2568687	0.85[EUR][1000 genomes]
rs2623418	0.92[CEU][hapmap];0.84[CHB][hapmap];0.82[EUR][1000 genomes]
rs2623422	0.96[CEU][hapmap];0.84[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs2623423	0.96[CEU][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs2623435	0.83[EUR][1000 genomes]
rs2623437	0.83[EUR][1000 genomes]
rs300885	0.96[CEU][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs3754929	0.92[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.81[EUR][1000 genomes]
rs4503956	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs4666819	0.92[CEU][hapmap];0.88[AMR][1000 genomes]
rs55747252	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56282499	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56301405	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57801137	0.82[EUR][1000 genomes]
rs6740401	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs68189385	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs711808	0.85[EUR][1000 genomes]
rs72895040	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs753289	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs7571503	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs7581170	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs833133	0.82[EUR][1000 genomes]
rs833135	0.83[EUR][1000 genomes]
rs833140	0.96[CEU][hapmap];0.88[CHD][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes]
rs833156	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs964757	0.92[CEU][hapmap];0.84[CHB][hapmap]
rs964758	0.92[CEU][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	nsv875477	chr2:182938377-183086478	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17366198	TMPO	trans	parietal	SCAN
rs17366198	DNAJC10	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:182998600-183024000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr2:183013600-183021200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr2:183013600-183048000	Weak transcription	Aorta	Aorta
4	chr2:183018200-183018600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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