SNP Report

Basic Info

Name	rs4792887 dbSNP Ensembl
Location	chrCHR_HSCHR17_2_CTG5:45811268 - 45811268(1)
Variant Alleles	T/C
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.129992
Functional Annotation	intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000293493, ENST00000314537, ENST00000339069, ENST00000347197, ENST00000352855, ENST00000398285, ENST00000577353, ENST00000582766, ENST00000587305, ENST00000619154, ENST00000634540); NMD_transcript_variant(ENST00000347197); non_coding_transcript_exon_variant(ENST00000634876); non_coding_transcript_variant(ENST00000582766, ENST00000587305, ENST00000634876, ENST00000611599, ENST00000613260, ENST00000614143, ENST00000615345, ENST00000617446, ENST00000618382, ENST00000616225, ENST00000616274, ENST00000616748, ENST00000617905, ENST00000618144, ENST00000621969, ENST00000631500, ENST00000632383, ENST00000632599, ENST00000633723, ENST00000634181, ENST00000632383, ENST00000631500, ENST00000632599, ENST00000634181)
No. of Studies	4 (Positive: 0; Negative: 4; Trend: 0)
Source	Literature
Overlap with SZ?	NO
Overlap with MDD?	YES

SNP related studies (count: 4)

Reference	Allele Change	Statistical Values	Author Comments	Result Category
Szczepankiewicz, A., 2013	C/T	allelic P-value=0.201, genotypic P-value=0.266, OR=1.631, 95...... allelic P-value=0.201, genotypic P-value=0.266, OR=1.631, 95% CI=0.665-1.080 for affective disorder; allelic P-value=0.244, genotypic P-value=0.371, OR=0.841, 95% CI=0.644-1.108 for BD More...	No significant association was observed. No significant association was observed.	Negative
Leszczynska-Rodziewicz, A., 2012	C/T	genotypic P-value = 0.45 genotypic P-value = 0.45	There were no significant differences for other polymorphism...... There were no significant differences for other polymorphisms in the studied group in comparison to the control group. More...	Negative
Leszczynska-Rodziewicz A, 2013	C/T	P-value=0.90 P-value=0.90	Neither genotypes nor alleles were significantly associated ...... Neither genotypes nor alleles were significantly associated with melancholic depression. More...	Negative
Ceulemans, S.,2011	T/C	Single SNP analyses: Permuted P-value = 0.4973, Odds Ratio=0...... Single SNP analyses: Permuted P-value = 0.4973, Odds Ratio=0.8741 More...	No significant association was observed. No significant association was observed.	Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
MAPT-AS1	MAPT antisense RNA 1	17q21.31	Mapped by Literature SNP
CRHR1	corticotropin releasing hormone receptor 1	17q21.31	4(2/2/0)

SNPs in LD with rs4792887 (count: 6) View in gBrowse (chrCHR_HSCHR17_2_CTG5:45810701..45814407 )

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]
rs4792888	intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	1.0[CEU]
rs16969853	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs12936181	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]
rs12944996	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]
rs4792886	intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	1.0[CEU]
rs16940646	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]

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

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

Reference	Statistical Result	Description	Result Category
Szczepankiewicz, A., 2013	allelic P-value=0.201, genotypic P-value=0.266, OR=1.631, 95% CI=0.665-1.080 for affective disorder; allelic P-value=0.431, genotypic P-value=0.443, OR=0.853, 95% CI=0.598-1.218 for MDD	No significant association was observed.	Negative