BDgene

SNP Report

Basic Info
Name rs12475889 dbSNP Ensembl
Location chr2:166466637 - 166466637(1)
Variant Alleles A/C
Ancestral Allele C
Minor Allele A
Minor Allele Frequence 0.444089
Functional Annotation intron_variant; NMD_transcript_variant; upstream_gene_variant.
Consequence to Transcript intron_variant(ENST00000409855, ENST00000419992, ENST00000424326, ENST00000441411, ENST00000619410, ENST00000621965); NMD_transcript_variant(ENST00000424326); upstream_gene_variant(ENST00000497562)
No. of Studies 1 (Positive: 0; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? NO
Overlap with MDD? NO

SNP related studies (count: 1)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Xu, W., 2014 P(unadj)-value=0.000266, OR (unadj)=0.775, P(adj)-value=0....... P(unadj)-value=0.000266, OR (unadj)=0.775, P(adj)-value=0.000361, OR(adj)=0.7774 More... Listing suggestive significant genic SNPs for combined Toron...... Listing suggestive significant genic SNPs for combined Toronto and London GWAS for which there are 4 or more suggestive significant SNPs among the top 1000, and for which no other positive reports have been published to date. More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
SCN7A sodium channel, voltage gated, type VII alpha subunit 2q21-q23 1(0/1/0)

SNPs in LD with rs12475889 (count: 6) View in gBrowse (chr2:166425242..166502173 )
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: 6)


Overlap with SZ from cross-disorder studies (count: 0)

Overlap with MDD from cross-disorder studies (count: 0)

Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback Acknowledgements
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Last update: March 31, 2016