SNP Report

Basic Info

Name	rs6734 dbSNP Ensembl
Location	chr3:196935650 - 196935650(1)
Variant Alleles	G/A
Ancestral Allele	G
Minor Allele	A
Minor Allele Frequence	0.444688
Functional Annotation	3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	3_prime_UTR_variant(ENST00000321256, ENST00000427641, ENST00000428425, ENST00000447325); downstream_gene_variant(ENST00000323460, ENST00000411704, ENST00000419026, ENST00000422610, ENST00000434433, ENST00000445299, ENST00000448068, ENST00000452404, ENST00000455953, ENST00000463245, ENST00000468923, ENST00000479647, ENST00000482976); intron_variant(ENST00000467803); NMD_transcript_variant(ENST00000428425); non_coding_transcript_exon_variant(ENST00000463783); non_coding_transcript_variant(ENST00000463783, ENST00000467803); upstream_gene_variant(ENST00000447775)
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
Schosser, A.,2011			chi-square (X²) test: genotype, X²=0.6...... chi-square (X²) test: genotype, X²=0.651, P-value = 0.722; allele, X²=1.63, P-value = 0.201 More...	No significant association was observed. No significant association was observed.	Negative

SNP related genes (count: 3)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
SENP5	SUMO1/sentrin specific peptidase 5	3q29	Mapped by Literature SNP
NCBP2-AS1	NCBP2 antisense RNA 1	3q29	Mapped by Literature SNP
NCBP2	nuclear cap binding protein subunit 2, 20kDa	3q29	1(0/1/0)

SNPs in LD with rs6734 (count: 21) View in gBrowse (chr3:196872451..196945969 )

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]
rs335825	downstream_gene_variant; upstream_gene_variant	0.897[CEU]; 0.951[TSI]
rs9825635	intron_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[TSI]
rs6583186	intron_variant; upstream_gene_variant	1.0[CEU]; 1.0[TSI]
rs9879020	intron_variant	1.0[CEU]; 1.0[TSI]
rs6764491	intron_variant	1.0[CEU]
rs6810093	intron_variant	1.0[CEU]; 1.0[TSI]
rs6797744	intron_variant	1.0[CEU]; 1.0[TSI]
rs9883316	intron_variant; upstream_gene_variant	1.0[CEU]
rs4916567	intron_variant	1.0[CEU]; 0.975[TSI]
rs11720509	intron_variant	1.0[CEU]; 1.0[TSI]
rs335824	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	0.893[CEU]; 0.975[TSI]
rs6583189	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[TSI]
rs9873265	intron_variant; upstream_gene_variant	0.89[CEU]; 0.975[TSI]
rs11715567	downstream_gene_variant; intron_variant; upstream_gene_variant	1.0[CEU]
rs7613138	intron_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[TSI]
rs516461	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs7642549	downstream_gene_variant; intron_variant; upstream_gene_variant	0.875[CEU]; 0.974[TSI]
rs11185460	intron_variant	1.0[CEU]; 1.0[TSI]
rs11185459	intron_variant	1.0[CEU]; 1.0[TSI]
rs6798086	intron_variant	1.0[CEU]
rs6583187	intron_variant; non_coding_transcript_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)