SNP Report

Basic Info

Name	rs2175420 dbSNP Ensembl
Location	chr11:79412839 - 79412839(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.130791
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000278550, ENST00000528688, ENST00000531583); non_coding_transcript_variant(ENST00000528688, ENST00000531583)
No. of Studies	1 (Positive: 0; Negative: 0; Trend: 1)
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
Sklar, P.,2011	C/T		Primary GWAS P-value(GC)=0.000029, OR=0.87; replication P-va...... Primary GWAS P-value(GC)=0.000029, OR=0.87; replication P-value(1-sided)=0.0078, OR=0.92; Combined GWAS and replication P-value(GC)=0.00000235, OR=0.89 More...	Suggestive association was found. Suggestive association was found.	Trend

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
TENM4	teneurin transmembrane protein 4	11q13	6(4/2/0)

SNPs in LD with rs2175420 (count: 6) View in gBrowse (chr11:79412839..79426334 )

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]
rs12279943	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]
rs12273727	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.927[CEU]
rs10501444	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.927[CEU]
rs17138318	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.927[CEU]
rs12275848	intron_variant; non_coding_transcript_variant	0.927[CEU]
rs1567540	intron_variant; non_coding_transcript_variant	0.927[CEU]; 1.0[TSI]

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

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