SNP Report

Basic Infomation

Name	rs1554846 dbSNP
Location	chr:17,57766975
Allele	T/C

LD-proxy of rSNPs(r²>0.8) (count: 45)

The LD data used here is based on HapMap rel#27 and 1000 Genomes phase I data. LD SNP pairs were selected with a threshold r² >=0.8.

rs_ID	r²[population][source]
rs10515171	0.91[JPT][hapmap]
rs10853013	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10853014	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11079385	0.92[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11658001	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11872004	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12603541	0.90[JPT][hapmap]
rs1528493	0.91[JPT][hapmap]
rs1534550	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16943748	0.91[JPT][hapmap]
rs2271303	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2272411	0.91[JPT][hapmap]
rs28564580	0.95[CHB][hapmap]
rs3803861	0.85[JPT][hapmap]
rs3803862	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3817158	0.91[JPT][hapmap]
rs4968384	0.95[CHB][hapmap]
rs4968389	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4968391	0.80[AFR][1000 genomes]
rs57592560	0.82[ASN][1000 genomes]
rs6503923	0.95[CHB][hapmap]
rs6503929	0.95[CHB][hapmap]
rs71372120	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7209369	0.95[CHB][hapmap]
rs7210390	0.95[CHB][hapmap]
rs7210832	0.95[CHB][hapmap]
rs7210881	0.91[CHB][hapmap]
rs7212825	0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs7223899	0.85[JPT][hapmap]
rs7224631	0.86[JPT][hapmap]
rs8066828	0.95[CHB][hapmap]
rs8069123	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8071030	0.80[AMR][1000 genomes]
rs8071796	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs907066	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs916910	0.91[CHB][hapmap]
rs9652857	0.92[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9898835	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9899390	0.95[CHB][hapmap]
rs9903626	0.82[JPT][hapmap]
rs9903999	0.86[CHB][hapmap]
rs9905730	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9909087	0.95[CHB][hapmap]
rs9913684	0.95[CHB][hapmap]
rs9913835	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

rSNP related genes

Symbol	Regulation type
PTRH2	Distal transcriptional regulation
CLTC	Distal transcriptional regulation

rSNP related regulatory elements

Proximal transcriptional regulation

Distal transcriptional regulation

Post-transcriptional regulation:within mature miRNA

Post-transcriptional regulation: associated with RNA binding protein

eQTL evidence (count: 3)

eQTL related gene	Source
TAX1BP3	SCAN
DHX40	SCAN
PTRH2	SCAN