SNP Report

Basic Info

Name	rs9315897 dbSNP Ensembl
Location	chr13:42164846 - 42164846(1)
Variant Alleles	T/C
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.128395
Functional Annotation	intron_variant; NMD_transcript_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000261491, ENST00000337343, ENST00000379274, ENST00000498255, ENST00000536612, ENST00000626247, ENST00000627777, ENST00000628433); NMD_transcript_variant(ENST00000626247, ENST00000627777); non_coding_transcript_variant(ENST00000498255)
No. of Studies	3 (Positive: 0; Negative: 3; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	YES

SNP related studies (count: 3)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Takata, A.,2011(a)	T/C		Fisher's exact test: allele P-value = 0.3211, genotype P-val...... Fisher's exact test: allele P-value = 0.3211, genotype P-value = 0.5399 More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Zeng, Z.,2011		C	Allelic association: P-value = 0.089, permutated P-value = 0...... Allelic association: P-value = 0.089, permutated P-value = 0.547 for BPD; P-value = 0.122, permutated P-value = 0.669 for BPDI More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Yosifova, A.,2009	C/T		Allelic association: P-value = 0.22 Allelic association: P-value = 0.22	No significant association was observed No significant association was observed	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
DGKH	diacylglycerol kinase, eta	13q13.3	6(3/3/0)

SNPs in LD with rs9315897 (count: 45) View in gBrowse (chr13:42074728..42257219 )

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: 45)

rs_ID	Functional Annotation	r²[population]
rs13378817	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9525573	intron_variant	1.0[CEU]; 1.0[CHD]; 1.0[JPT]
rs9532997	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs605371	intron_variant; splice_region_variant	0.842[JPT]
rs1170156	intron_variant	0.83[JPT]
rs9532998	intron_variant	1.0[CEU]; 0.816[TSI]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs2296504	3_prime_UTR_variant; downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.887[JPT]
rs942895	intron_variant	0.823[JPT]
rs9525569	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs9315887	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9525580	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.836[CHD]; 0.842[JPT]
rs9594677	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs957255	intron_variant	0.842[JPT]
rs2122245	downstream_gene_variant	0.842[JPT]
rs9525582	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]
rs9533005	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9285148	intron_variant	0.846[CHB]; 0.836[CHD]; 0.842[JPT]
rs1170161	intron_variant	0.842[JPT]
rs942897	intron_variant	0.842[JPT]
rs4142111	intron_variant	0.823[JPT]
rs663701	intron_variant	0.842[JPT]
rs4619294	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.915[JPT]
rs654300	intron_variant	0.842[JPT]
rs9315886	intron_variant	0.823[JPT]
rs627089	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9532993	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs668989	intron_variant	0.842[JPT]
rs9590664	intron_variant	1.0[CEU]; 0.816[TSI]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs656072	intron_variant	0.832[JPT]
rs9645983	intron_variant	1.0[CHB]; 1.0[JPT]
rs656490	intron_variant	0.83[JPT]
rs1115398	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs10467371	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs1170157	intron_variant	0.842[JPT]
rs2038882	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs9532986	intron_variant; upstream_gene_variant	0.823[JPT]
rs17520002	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs17646219	intron_variant; non_coding_transcript_variant	0.842[JPT]
rs9594693	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.936[CEU]; 0.823[CHB]; 1.0[JPT]
rs12856887	intron_variant	1.0[CEU]; 1.0[CHB]; 1.0[JPT]
rs10492444	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 0.969[TSI]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs17646249	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.842[JPT]
rs9645982	intron_variant	1.0[CEU]; 0.822[CHB]; 1.0[JPT]
rs9315899	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.915[JPT]
rs9533041	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.915[JPT]

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

Reference	Statistical Result	Description	Result Category
Zeng, Z.,2011	Allelic association:P-value = 0.583, permutated P-value = 1 for SCZ	No significant association was observed after permutation.	Negative

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

Reference	Statistical Result	Description	Result Category
Zeng, Z.,2011	Allelic association:P-value > 0.05 for MDD.	No significant association was observed after permutation.	Negative