SNP Report
Basic Infomation
| Name | rs3789607 dbSNP |
|---|---|
| Location | chr:1,114366434 |
| Allele | T/C |
LD-proxy of rSNPs(r2>0.8) (count: 59)
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] |
|---|---|
| rs10127930 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs10489936 | 0.87[EUR][1000 genomes] |
| rs1080307 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs1217384 | 1.00[ASW][hapmap];0.95[CEU][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs1217394 | 1.00[ASW][hapmap] |
| rs12723023 | 0.82[EUR][1000 genomes] |
| rs12729708 | 0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs12730735 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12731010 | 0.85[EUR][1000 genomes] |
| rs12734625 | 1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs12735104 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12739970 | 0.82[EUR][1000 genomes] |
| rs12748727 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12752932 | 0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs12753075 | 0.84[EUR][1000 genomes] |
| rs12753351 | 0.87[EUR][1000 genomes] |
| rs12758546 | 0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs12760457 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs13374352 | 1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs1539438 | 1.00[ASW][hapmap] |
| rs17274550 | 0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs17274620 | 0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs17274634 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes] |
| rs17359302 | 0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs17462614 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs17509390 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1885454 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs2040040 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs2359173 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs2359174 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs34042871 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs34341173 | 1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs34649199 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs34857922 | 1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs34877889 | 0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs35320278 | 0.88[EUR][1000 genomes] |
| rs35836713 | 0.88[EUR][1000 genomes] |
| rs36115604 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs3747998 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs3748003 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs3752953 | 0.95[CEU][hapmap];1.00[JPT][hapmap] |
| rs3761931 | 0.87[EUR][1000 genomes] |
| rs3789595 | 0.88[EUR][1000 genomes] |
| rs3789599 | 0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.86[ASN][1000 genomes] |
| rs3789609 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs61817586 | 1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs61817617 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs61819423 | 0.84[EUR][1000 genomes] |
| rs61819424 | 0.81[EUR][1000 genomes] |
| rs61820162 | 0.87[EUR][1000 genomes] |
| rs6668829 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs6674848 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs6703387 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs71662845 | 0.81[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs7533391 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7533605 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs7549685 | 1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs7555354 | 1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs9803891 | 0.85[EUR][1000 genomes] |
rSNP related genes
| Symbol | Regulation type |
|---|---|
| PTPN22 | Proximal transcriptional regulation |
| PTPN22 | Distal transcriptional regulation |
| RSBN1 | Distal transcriptional regulation |
| ENSG00000231128 | Distal transcriptional regulation |
| AP4B1 | Distal transcriptional regulation |
| DCLRE1B | Distal transcriptional regulation |
| ENSG00000231128 | RNA binding protein mediated regulation |
| PTPN22 | RNA binding protein mediated 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 |
|---|---|
| CD58 | SCAN |
Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback
Last update: March 26, 2014