BDgene

SNP Report

Basic Info
Name rs2229840 dbSNP Ensembl
Location chr12:124341916 - 124341916(1)
Variant Alleles C/T
Ancestral Allele C
Minor Allele T
Minor Allele Frequence 0.160942
Functional Annotation downstream_gene_variant; missense_variant; upstream_gene_variant.
Polyphen Annotation: possibly damaging(ENST00000404621, ENST00000453428); probably damaging(ENST00000356219, ENST00000404121, ENST00000405201, ENST00000429285)
SIFT Annotation: tolerated(ENST00000404621, ENST00000453428, ENST00000356219, ENST00000404121, ENST00000405201, ENST00000429285)
Consequence to Transcript downstream_gene_variant(ENST00000458234); missense_variant(ENST00000404621, ENST00000453428, ENST00000356219, ENST00000404121, ENST00000405201, ENST00000429285); upstream_gene_variant(ENST00000440187, ENST00000622851)
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
Shink, E.,2005(b) T1699A Allelic analysis: T1 P-value = 0.813, OR (95% CI)=1.08(0.69-...... Allelic analysis: T1 P-value = 0.813, OR (95% CI)=1.08(0.69-1.69); genotypic analysis: T1 P-value = 0.591, T3 P-value = 0.593 More... No significant association was observed. No significant association was observed. Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
NCOR2 nuclear receptor corepressor 2 12q24 1(0/1/0)

SNPs in LD with rs2229840 (count: 1) View in gBrowse (chr12:124324481..124341916 )
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: 1)


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

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