Variant report

Variant	rs10845054
Chromosome Location	chr12:10303535-10303536
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1050283	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs1050286	0.94[CHB][hapmap];0.88[ASN][1000 genomes]
rs10505755	0.94[CHB][hapmap];0.92[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs10845051	0.89[ASN][1000 genomes]
rs10845055	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs10845056	0.88[ASN][1000 genomes]
rs11053641	0.98[ASN][1000 genomes]
rs11053643	0.87[ASN][1000 genomes]
rs11053644	0.87[ASN][1000 genomes]
rs11053647	0.92[CHB][hapmap];0.88[ASN][1000 genomes]
rs11053648	0.94[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs11053649	0.94[CHB][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs11053650	0.88[ASN][1000 genomes]
rs11053651	0.87[ASN][1000 genomes]
rs11053654	0.84[ASN][1000 genomes]
rs11608874	0.88[ASN][1000 genomes]
rs11609310	0.88[ASN][1000 genomes]
rs11615002	0.88[ASN][1000 genomes]
rs11615035	0.88[ASN][1000 genomes]
rs11831267	0.99[ASN][1000 genomes]
rs12230161	0.88[ASN][1000 genomes]
rs12231585	0.88[ASN][1000 genomes]
rs12819932	0.88[ASN][1000 genomes]
rs12822177	0.94[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs13306593	0.88[ASN][1000 genomes]
rs17174597	0.88[ASN][1000 genomes]
rs17174598	0.88[ASN][1000 genomes]
rs2171602	0.88[ASN][1000 genomes]
rs2537777	0.82[CEU][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap]
rs2537778	0.81[CEU][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap]
rs2634159	0.82[AMR][1000 genomes]
rs2634160	0.80[AMR][1000 genomes]
rs2634162	0.94[YRI][hapmap];0.82[AMR][1000 genomes]
rs2742115	0.93[YRI][hapmap];0.82[AMR][1000 genomes]
rs34874375	0.88[ASN][1000 genomes]
rs34908088	0.88[ASN][1000 genomes]
rs35547206	0.99[ASN][1000 genomes]
rs3736232	0.94[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3736233	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3736234	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3736235	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3741860	0.83[MEX][hapmap]
rs3816844	0.94[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3994135	0.88[ASN][1000 genomes]
rs4482119	0.87[ASN][1000 genomes]
rs4482120	0.85[ASN][1000 genomes]
rs4495966	0.88[ASN][1000 genomes]
rs4495967	0.88[ASN][1000 genomes]
rs6488265	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7296800	0.87[CEU][hapmap];0.84[JPT][hapmap]
rs7300650	0.81[CEU][hapmap];0.81[GIH][hapmap];0.81[TSI][hapmap]
rs7305138	0.94[YRI][hapmap]
rs7315498	0.81[CEU][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs9300224	0.94[YRI][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	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10845054	PTPN6	cis	cerebellum	SCAN
rs10845054	ACRBP	cis	parietal	SCAN
rs10845054	AICDA	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10303200-10305800	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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