SNP Report

Basic Info

Name	rs6496898 dbSNP Ensembl
Location	chr15:92157973 - 92157973(1)
Variant Alleles	C/T
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.273163
Functional Annotation	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000555769, ENST00000557683); intron_variant(ENST00000318445, ENST00000424469, ENST00000555210, ENST00000555513, ENST00000555549, ENST00000555892, ENST00000561674); NMD_transcript_variant(ENST00000555210, ENST00000555892); non_coding_transcript_variant(ENST00000555513, ENST00000555549, ENST00000561674); upstream_gene_variant(ENST00000564072)
No. of Studies	1 (Positive: 1; Negative: 0; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
McAuley, E. Z., 2012	G/A		P-value = 0.033, Empirical P-value = 0.035, OR (95% CI)=1.43...... P-value = 0.033, Empirical P-value = 0.035, OR (95% CI)=1.43 (1.04-1.99) in the Australian bipolar disorder cohort More...	Nominally significant association (P < 0.05) was found with ...... Nominally significant association (P < 0.05) was found with 18 SNPs. Association with 14 of these SNPs held true when empirical P values were obtained through 10, 000 replicate permutations. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
SLCO3A1	solute carrier organic anion transporter family, member 3A1	15q26	2(1/1/0)

SNPs in LD with rs6496898 (count: 4) View in gBrowse (chr15:92157044..92165320 )

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]
rs2283453	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs1060206	3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.956[CEU]
rs2283454	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs873122	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]; 0.97[TSI]

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

Reference	Statistical Result	Description	Result Category
McAuley, E. Z., 2012	P-value > 0.075	Single SNP analysis did not yield significant evidence for association.	Negative

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