SNP Report

Basic Info

Name	rs6039769 dbSNP Ensembl
Location	chr20:10218306 - 10218306(1)
Variant Alleles	A/C
Ancestral Allele	C
Minor Allele	A
Minor Allele Frequence	0.186901
Functional Annotation	intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000421143, ENST00000426491, ENST00000451151, ENST00000453544, ENST00000603542, ENST00000605592); non_coding_transcript_variant(ENST00000421143, ENST00000426491, ENST00000451151, ENST00000453544, ENST00000603542, ENST00000605592); upstream_gene_variant(ENST00000254976, ENST00000304886, ENST00000430336)
No. of Studies	1 (Positive: 1; Negative: 0; 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
Etain, B., 2010	C/A	A	P-value = 0.005, OR=0.62 between subjects affected with earl...... P-value = 0.005, OR=0.62 between subjects affected with early-onset bipolar disorder (N= 197) and healthy controls (N= 136). Genotypic association P-value = 0.017 More...	differed significantly between the early-onset and control g...... differed significantly between the early-onset and control groups; remained significant in early-onset subgroup after correction for multiple testing. Significant genotypic association was observed only for SNP4. More...	Positive

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
SNAP25-AS1	SNAP25 antisense RNA 1	20p12.2	Mapped by Literature SNP
SNAP25	synaptosomal-associated protein, 25kDa	20p12-p11.2	2(2/0/0)

SNPs in LD with rs6039769 (count: 4) View in gBrowse (chr20:10202370..10218306 )

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]
rs1889189	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.817[CEU]; 0.944[TSI]
rs2327263	intron_variant; non_coding_transcript_variant	0.861[TSI]
rs4813921	intron_variant; non_coding_transcript_variant	0.817[CEU]; 0.861[TSI]
rs6032824	intron_variant; non_coding_transcript_variant	0.817[CEU]

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

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