SNP Report

Basic Info

Name	rs6425744 dbSNP Ensembl
Location	chr1:31377810 - 31377810(1)
Variant Alleles	A/G
Ancestral Allele	A
Minor Allele	A
Minor Allele Frequence	0.285743
Functional Annotation	upstream_gene_variant.
Consequence to Transcript	upstream_gene_variant(ENST00000373713, ENST00000482018, ENST00000498148)
No. of Studies	1 (Positive: 0; Negative: 1; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Iwayama, Y., 2010	T/C		allele test P-value = 0.2114, genotype test P-value = 0.3406 allele test P-value = 0.2114, genotype test P-value = 0.3406	None of the 8 SNPs showed association with bipolar disorder None of the 8 SNPs showed association with bipolar disorder	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
FABP3	fatty acid binding protein 3, muscle and heart	1p33-p32	2(1/1/0)

SNPs in LD with rs6425744 (count: 20) View in gBrowse (chr1:31249319..31429571 )

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: 20)

rs_ID	Functional Annotation	r²[population]
rs12401792	intron_variant; upstream_gene_variant	0.86[CHB]; 0.868[CHD]
rs4949203	intron_variant; non_coding_transcript_variant	0.86[CHB]; 0.868[CHD]
rs905929		1.0[CHB]; 0.856[JPT]
rs10914350	intron_variant; non_coding_transcript_variant	0.86[CHB]; 0.868[CHD]
rs2889753		0.95[CHB]; 0.865[JPT]
rs10753248	intron_variant; non_coding_transcript_variant	0.86[CHB]
rs6425741	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.852[CHB]
rs10047085	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.899[CHB]; 0.908[CHD]
rs12042883	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.95[CHB]; 0.929[CHD]; 0.863[JPT]
rs7549339		0.805[CHD]
rs2297884	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.899[CHB]; 0.928[CHD]
rs6425742	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.86[CHB]
rs3753373	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.805[CHD]
rs12564155	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.86[CHB]; 0.868[CHD]
rs10914372		1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs6425730	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.809[CHD]
rs756352	intron_variant; non_coding_transcript_variant	0.86[CHB]; 0.867[CHD]
rs4949388	intron_variant; non_coding_transcript_variant	0.86[CHB]
rs924930	downstream_gene_variant	0.809[CHD]
rs7533667	intron_variant; non_coding_transcript_variant	0.86[CHB]; 0.868[CHD]

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

Reference	Statistical Result	Description	Result Category
Iwayama, Y., 2010	allele test P-value = 0.6259, genotype test P-value = 0.2468	None of the 8 SNPs showed association with schizophrenia.	Negative

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