SNP Report

Basic Info

Name	rs933399 dbSNP Ensembl
Location	chr12:111369695 - 111369695(1)
Variant Alleles	G/A
Ancestral Allele	A
Minor Allele	G
Minor Allele Frequence	0.375399
Functional Annotation	intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000552663); non_coding_transcript_variant(ENST00000552663); upstream_gene_variant(ENST00000361483, ENST00000547710, ENST00000549321)
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
Glaser, B.,2005(b)	A/G		For Sample I+II, allelic association: X²=8.25, P-...... For Sample I+II, allelic association: X²=8.25, P-value = 0.004, OR(95%CI)=0.7(0.6-0.9); genotypic association: X²=8.75, P-value = 0.01. For family based study, TDT: X²=0.24, P-value = 0.69. More...	Significant association was observed in both allelic associa...... Significant association was observed in both allelic association and genotypic association, but No significant association was observed in family based study. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
FAM109A	family with sequence similarity 109, member A	12q24.12	1(1/0/0)

SNPs in LD with rs933399 (count: 13) View in gBrowse (chr12:111298150..111369695 )

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]
rs7398833	3_prime_UTR_variant	1.0[CEU]; 0.906[TSI]
rs6490055	intron_variant	0.947[CEU]; 0.847[TSI]
rs3742004	3_prime_UTR_variant; downstream_gene_variant	0.847[TSI]
rs1344438	downstream_gene_variant; intron_variant	0.8[CEU]
rs6490077	downstream_gene_variant	1.0[CEU]; 0.937[TSI]
rs874286	3_prime_UTR_variant; downstream_gene_variant	1.0[CEU]; 0.968[TSI]
rs3803167	synonymous_variant	1.0[CEU]; 0.906[TSI]
rs7297186	downstream_gene_variant; intron_variant	1.0[CEU]; 0.876[TSI]
rs6490072	intron_variant	1.0[CEU]; 0.937[TSI]
rs10774619	intron_variant; upstream_gene_variant	1.0[CEU]
rs1362006	downstream_gene_variant; intron_variant	0.8[CEU]
rs10849938	3_prime_UTR_variant; downstream_gene_variant	1.0[CEU]; 0.968[TSI]
rs10219736	downstream_gene_variant	0.817[TSI]

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

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