SNP Report

Basic Info

Name	rs1127473 dbSNP Ensembl
Location	chr6:3270344 - 3270344(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.103435
Functional Annotation	3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant.
Consequence to Transcript	3_prime_UTR_variant(ENST00000406686, ENST00000436008, ENST00000509933); downstream_gene_variant(ENST00000324987, ENST00000380302, ENST00000380305, ENST00000380306, ENST00000419065, ENST00000438998, ENST00000473000, ENST00000482874, ENST00000490273, ENST00000497691); intron_variant(ENST00000451246, ENST00000454610); NMD_transcript_variant(ENST00000509933)
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
Xu, W., 2014			P(unadj)-value=0.000962,Â OR (unadj)=0.6506,Â P(adj)-value=0...... P(unadj)-value=0.000962,Â OR (unadj)=0.6506,Â P(adj)-value=0.002483,Â OR(adj)=0.6742 More...	Listing suggestive significant genic SNPs for combined Toron...... Listing suggestive significant genic SNPs for combined Toronto and London GWAS for which there are 4 or more suggestive significant SNPs among the top 1000, and for which no other positive reports have been published to date. More...	Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
PSMG4	proteasome (prosome, macropain) assembly chaperone 4	6p25.2	1(0/1/0)
SLC22A23	solute carrier family 22, member 23	6p25.2	1(1/0/0)

SNPs in LD with rs1127473 (count: 2) View in gBrowse (chr6:3270344..3273223 )

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]
rs1127470		3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant	0.866[CEU]; 1.0[TSI]
rs9503518		3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant; synonymous_variant	1.0[CEU]; 1.0[TSI]

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

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