SNP Report

Basic Info

Name	rs2075799 dbSNP Ensembl
Location	chrCHR_HSCHR6_MHC_QBL_CTG1:31800988 - 31800988(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.153554
Functional Annotation	synonymous_variant; upstream_gene_variant.
Consequence to Transcript	synonymous_variant(ENST00000375654); upstream_gene_variant(ENST00000375651, ENST00000375661, ENST00000470083, ENST00000470086, ENST00000475835, ENST00000477182, ENST00000491421, ENST00000493387, ENST00000608703, ENST00000426095, ENST00000422919, ENST00000430065, ENST00000432122, ENST00000467300, ENST00000478692, ENST00000482931, ENST00000483453, ENST00000484450, ENST00000490288, ENST00000456772, ENST00000441618, ENST00000449876, ENST00000455705, ENST00000461885, ENST00000474055, ENST00000474526, ENST00000488547, ENST00000491537, ENST00000417601, ENST00000424975, ENST00000433487, ENST00000452298, ENST00000462178, ENST00000467102, ENST00000467450, ENST00000474755, ENST00000480165, ENST00000497077, ENST00000383390, ENST00000383389, ENST00000383391, ENST00000400040, ENST00000462194, ENST00000474334, ENST00000477511, ENST00000482154, ENST00000482823, ENST00000483171)
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
Pae, C. U.,2009	G/A		ANOVA: P-value = 9E-06 ANOVA: P-value = 9E-06	Significant association was observed Significant association was observed	Positive

SNP related genes (count: 3)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
HSPA1A	heat shock 70kDa protein 1A	6p21.3	2(2/0/0)
LSM2	LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae)	6p21.3	Mapped by Literature SNP
HSPA1L	heat shock 70kDa protein 1-like	6p21.3	Mapped by Literature SNP

SNPs in LD with rs2075799 (count: 2) View in gBrowse (chrCHR_HSCHR6_MHC_QBL_CTG1:31638138..31800988 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Literature-origin SNPs with LD	Functional Annotation	r²[population]
rs2844463		downstream_gene_variant; intron_variant; upstream_gene_variant	0.822[JPT]
rs2242668		downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.92[CHB]; 0.965[CHD]; 0.904[JPT]

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

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