SNP Report

Basic Info

Name	rs11191454 dbSNP Ensembl
Location	chr10:102900247 - 102900247(1)
Variant Alleles	A/G
Ancestral Allele	A
Minor Allele	G
Minor Allele Frequence	0.147165
Functional Annotation	intron_variant; NMD_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000299353, ENST00000369880, ENST00000615257); NMD_transcript_variant(ENST00000299353)
No. of Studies	1 (Positive: 1; Negative: 0; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	YES

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013	A/G		Association analysis:P-value = 0.0000000139,OR(95%CI) = 1.13...... Association analysis:P-value = 0.0000000139,OR(95%CI) = 1.13(1.08â€“1.18) when five disorders were combined More...	Significant association was observed in cross-disorder analy...... Significant association was observed in cross-disorder analysis. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
AS3MT	arsenite methyltransferase	10q24.33	1(1/0/0)

SNPs in LD with rs11191454 (count: 39) View in gBrowse (chr10:102812519..103097766 )

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

Literature-origin SNPs (count: 0)

LD-proxies (count: 39)

rs_ID	Functional Annotation	r²[population]
rs11191555	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs11191511	intron_variant	1.0[CEU]
rs3824754	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]
rs10883806	intron_variant	0.848[CEU]
rs12221064	downstream_gene_variant; upstream_gene_variant	1.0[CEU]; 1.0[TSI]
rs11191531	intron_variant	1.0[CEU]
rs17094683	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[TSI]
rs12219027	intron_variant	1.0[CEU]
rs1004467	downstream_gene_variant; intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]
rs11191543	intron_variant; upstream_gene_variant	1.0[CEU]
rs4409766	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]
rs11191479	intron_variant	1.0[CEU]
rs11191499	intron_variant	1.0[CEU]; 1.0[TSI]
rs3740390	intron_variant; NMD_transcript_variant	1.0[CEU]; 1.0[TSI]
rs10509759	downstream_gene_variant; intron_variant	1.0[CEU]
rs10883815	intron_variant	1.0[CEU]
rs943037	non_coding_transcript_exon_variant; non_coding_transcript_variant; synonymous_variant	1.0[CEU]
rs11191472	intron_variant	1.0[CEU]
rs284851	downstream_gene_variant	0.901[TSI]
rs11191514	intron_variant	1.0[CEU]; 1.0[TSI]
rs12220743	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]
rs12412038	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs12217501	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]
rs11191548	3_prime_UTR_variant; downstream_gene_variant	1.0[CEU]; 1.0[TSI]
rs11191447	intron_variant; NMD_transcript_variant; upstream_gene_variant	1.0[CEU]
rs3824755	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]
rs17115100	downstream_gene_variant; intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]
rs17115213	intron_variant	1.0[CEU]
rs11191425	downstream_gene_variant; intron_variant; NMD_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]
rs11191515	intron_variant	1.0[CEU]
rs284861	intron_variant	0.858[TSI]
rs12413409	intron_variant	1.0[CEU]; 1.0[TSI]
rs10883808	intron_variant	1.0[CEU]
rs1926032	intron_variant; non_coding_transcript_variant	0.825[CEU]
rs7098825	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]
rs10458729	3_prime_UTR_variant; downstream_gene_variant	1.0[CEU]
rs3781285	intron_variant; upstream_gene_variant	1.0[CEU]
rs12411886	intron_variant	1.0[CEU]; 1.0[TSI]
rs11191416	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.848[CEU]; 0.948[TSI]

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

Reference	Statistical Result	Description	Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013	Association analysis:P-value = 0.0000000139,OR(95%CI) = 1.13(1.08â€“1.18) when five disorders were combined	Significant association was observed in cross-disorder analysis.	Positive

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

Reference	Statistical Result	Description	Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013	Association analysis:P-value = 0.0000000139,OR(95%CI) = 1.13(1.08â€“1.18) when five disorders were combined	Significant association was observed in cross-disorder analysis.	Positive