SNP Report

Basic Info
Name |
rs672607
dbSNP
Ensembl
|
Location |
chr1:147581540 - 147581540(1) |
Variant Alleles |
G/A |
Ancestral Allele |
G |
Minor Allele |
A |
Minor Allele Frequence |
0.201278 |
Functional Annotation |
intron_variant.
|
Consequence to Transcript |
intron_variant(ENST00000234739) |
No. of Studies |
1 (Positive: 1; Negative: 0; Trend: 0) |
Source |
Literature |
Overlap with SZ? |
YES
|
Overlap with MDD? |
YES
|

SNP related studies (count: 1)

SNP related genes (count: 1)
The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r2<=0.8.
Literature-origin SNPs (count: 0)
LD-proxies (count: 16)

rs_ID |
Literature-origin SNPs with LD |
Functional Annotation |
r2[population] |
rs10900379
|
|
intron_variant |
0.953[JPT]
|
rs2353525
|
|
intron_variant; upstream_gene_variant |
0.956[JPT]
|
rs614502
|
|
intron_variant |
1.0[CHB]; 1.0[JPT]
|
rs7526407
|
|
intron_variant; upstream_gene_variant |
0.953[JPT]
|
rs637784
|
|
intron_variant |
1.0[CHB]; 1.0[JPT]
|
rs10465881
|
|
intron_variant; upstream_gene_variant |
0.953[JPT]
|
rs10900382
|
|
intron_variant |
0.821[JPT]
|
rs644105
|
|
intron_variant |
1.0[CHB]; 1.0[JPT]
|
rs2132441
|
|
intron_variant |
0.953[JPT]
|
rs6695965
|
|
intron_variant |
0.954[JPT]
|
rs11240089
|
|
intron_variant |
0.953[JPT]
|
rs10793693
|
|
intron_variant |
0.956[JPT]
|
rs1390507
|
|
intron_variant |
0.907[JPT]
|
rs645388
|
|
intron_variant |
1.0[CHB]; 0.872[JPT]
|
rs666106
|
|
intron_variant |
1.0[CHB]; 1.0[JPT]
|
rs672619
|
|
intron_variant |
1.0[CHB]; 0.87[JPT]
|

Overlap with SZ from cross-disorder studies (count: 1)
Reference |
Statistical Result |
Description |
Result Category |
Li, J.,2011(b) |
Third-Stage Sample:for SZ, allele association P-value = 0.006, OR(95%CI)=0.82(0.72-0.94);Combined Third-Stage Sample, allele association P-value = 0.0000000000123, OR(98%CI)=0.79(0.74-0.85) |
Significant association was observed in SZ. |
Positive |

Overlap with MDD from cross-disorder studies (count: 1)
Reference |
Statistical Result |
Description |
Result Category |
Li, J.,2011(b) |
Third-Stage Sample:for MDD, allele association P-value = 0.001, OR(95%CI)=0.79(0.69-0.90) |
Significant association was observed in MDD. |
Positive
|