SNP Report

Basic Info

Name	rs133073 dbSNP Ensembl
Location	chr22:40679691 - 40679691(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	C
Minor Allele Frequence	0.382388
Functional Annotation	intron_variant; non_coding_transcript_variant; synonymous_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000498400); non_coding_transcript_variant(ENST00000498400); synonymous_variant(ENST00000249016, ENST00000381433); upstream_gene_variant(ENST00000465662)
No. of Studies	2 (Positive: 0; Negative: 2; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 2)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Severinsen, J. E., 2006 (a)	T/C		CLUMP T1 P-value = 0.4217, CLUMP T4 P-value = 0.4217 for BPD...... CLUMP T1 P-value = 0.4217, CLUMP T4 P-value = 0.4217 for BPD; CLUMP T1 P-value = 0.0546, CLUMP T4 P-value = 0.0546 for BPD and SZ in the Faeroese Sample; Empirical overall P-value = 0.347 for BPD in the Case-Control Sample From Scotland; Empirical overall P-value = 0.5632 for BPD and SZ in the Case-Control Sample From Scotland More...		Negative
Yosifova, A.,2009	C/T		Allelic association: P-value = 0.43 Allelic association: P-value = 0.43	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)
MCHR1	melanin-concentrating hormone receptor 1	22q13.3	2(1/1/0)

SNPs in LD with rs133073 (count: 4) View in gBrowse (chr22:40670883..40679691 )

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

rs_ID	Functional Annotation	r²[population]
rs133063	upstream_gene_variant	0.96[CEU]; 0.906[TSI]
rs133064	upstream_gene_variant	0.959[CEU]; 0.976[TSI]
rs12172281	downstream_gene_variant	0.959[CEU]; 0.879[TSI]
rs133072	intron_variant; missense_variant; non_coding_transcript_variant; upstream_gene_variant	0.81[CEU]

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Severinsen, J. E., 2006 (a)	CLUMP T1 P-value = 0.0083, CLUMP T4 P-value = 0.0083 for SZ; CLUMP T1 P-value = 0.0546, CLUMP T4 P-value = 0.0546 for BPD and SZ in the Faeroese Sample; Empirical overall P-value = 0.8469 for SZ in the Case-Control Sample From Scotland; Empirical overall P-value = 0.5632 for BPD and SZ in the Case-Control Sample From Scotland	The three GPR24 SNPs rs133068, rs133069, and rs133073 showed association with SZ yielding P-values of 0.008-0.02.	Positive

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