SNP Report
Basic Infomation
| Name | rs554122 dbSNP |
|---|---|
| Location | chr:11,65033874 |
| Allele | T/C |
LD-proxy of rSNPs(r2>0.8) (count: 57)
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] |
|---|---|
| rs1152611 | 0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs1195733 | 1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs12269727 | 0.85[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs1633466 | 1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1783486 | 1.00[CEU][hapmap];0.89[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1858783 | 0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs239261 | 0.80[CEU][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap] |
| rs28781278 | 0.89[AMR][1000 genomes] |
| rs2904966 | 1.00[CHB][hapmap];0.88[GIH][hapmap] |
| rs2904967 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs2904978 | 0.82[MEX][hapmap] |
| rs2904979 | 0.80[CEU][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs2904980 | 0.83[ASW][hapmap];1.00[CEU][hapmap];0.89[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[MKK][hapmap];0.83[ASN][1000 genomes] |
| rs2904981 | 0.86[CEU][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs2904982 | 1.00[CHB][hapmap] |
| rs2904983 | 0.83[ASN][1000 genomes] |
| rs2904984 | 1.00[CEU][hapmap];1.00[JPT][hapmap] |
| rs2904986 | 0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2957111 | 0.83[ASN][1000 genomes] |
| rs3015997 | 0.80[CEU][hapmap];0.89[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs3016000 | 0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs3016001 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs3741386 | 1.00[CHB][hapmap] |
| rs4149813 | 0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs482842 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs487397 | 0.83[ASN][1000 genomes] |
| rs487568 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs487989 | 0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs488289 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs499027 | 0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs503277 | 0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs506280 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs507005 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs509303 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs526502 | 0.83[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.95[TSI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs551523 | 1.00[CHB][hapmap] |
| rs560097 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs592050 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs603286 | 0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs611910 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs612392 | 0.83[CHD][hapmap] |
| rs620427 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap] |
| rs625427 | 0.81[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs626555 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs626802 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs630055 | 0.83[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.90[MEX][hapmap];0.92[MKK][hapmap];0.95[TSI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs636928 | 0.86[EUR][1000 genomes] |
| rs650056 | 0.83[ASN][1000 genomes] |
| rs655433 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs667341 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs668735 | 0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs673147 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs676114 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap] |
| rs676573 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs689288 | 0.83[CHD][hapmap] |
| rs7116674 | 0.94[CHD][hapmap] |
| rs8638 | 0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rSNP related genes
| Symbol | Regulation type |
|---|---|
| POLA2 | Proximal transcriptional regulation |
| CAPN1 | Distal transcriptional regulation |
| ENSG00000270117 | Distal transcriptional regulation |
| MALAT1 | Distal transcriptional regulation |
| ENSG00000255173 | Distal transcriptional regulation |
| ZNHIT2 | Distal transcriptional regulation |
| FAU | Distal transcriptional regulation |
| MRPL49 | Distal transcriptional regulation |
| SYVN1 | Distal transcriptional regulation |
| POLA2 | 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: 1)
| eQTL related gene | Source |
|---|---|
| POLA2 | Pritchard |
Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback
Last update: March 26, 2014