SNP Report

Basic Info

Name	rs2272089 dbSNP Ensembl
Location	chr4:148152404 - 148152404(1)
Variant Alleles	C/T
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.268371
Functional Annotation	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000503174); intron_variant(ENST00000342437, ENST00000344721, ENST00000358102, ENST00000503313, ENST00000511528, ENST00000512865, ENST00000514843, ENST00000625323); NMD_transcript_variant(ENST00000342437); non_coding_transcript_variant(ENST00000503313, ENST00000514843)
No. of Studies	1 (Positive: 0; Negative: 1; 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
Ceulemans, S.,2011	G/A		Single SNP analyses: Permuted P-value = 0.22, Odds Ratio=1.2...... Single SNP analyses: Permuted P-value = 0.22, Odds Ratio=1.202 More...	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)
NR3C2	nuclear receptor subfamily 3, group C, member 2	4q31	1(1/0/0)

SNPs in LD with rs2272089 (count: 4) View in gBrowse (chr4:148152404..148167434 )

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]
rs7694064	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[TSI]
rs7694200	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.953[CEU]; 1.0[TSI]
rs3843410	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.865[CEU]
rs7694706	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]

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

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