SNP Report

Basic Info

Name	rs4689410 dbSNP Ensembl
Location	chr4:6342477 - 6342477(1)
Variant Alleles	G/A
Ancestral Allele	A
Minor Allele	A
Minor Allele Frequence	0.401158
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000335585, ENST00000382599, ENST00000506140, ENST00000507294, ENST00000513943, ENST00000515571); non_coding_transcript_variant(ENST00000513943)
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	A/G		P(unadj)-value=2.04E-05,Â OR (unadj)=0.7418,Â P(adj)-value=5...... P(unadj)-value=2.04E-05,Â OR (unadj)=0.7418,Â P(adj)-value=5.96E-06,Â OR (adj)=0.7264 More...	Top 68 SNPs (showing suggestive association to BD: p<0.0001)...... Top 68 SNPs (showing suggestive association to BD: p<0.0001) in our combined (CAMH and IoP) GWAS. SNPs from top 1000 from our combined CAMH/IoP GWAS for BPAD, for which at least one other non-overlapping GWAS also shows association at same gene. More...	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
PPP2R2C	protein phosphatase 2, regulatory subunit B, gamma	4p16.1	2(1/1/0)

SNPs in LD with rs4689410 (count: 1) View in gBrowse (chr4:6342477..6343311 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Literature-origin SNPs with LD	Functional Annotation	r²[population]
rs7441490		downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.885[CEU]

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

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