SNP Report

Basic Info

Name	rs6663779 dbSNP Ensembl
Location	chr1:31362680 - 31362680(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.23722
Functional Annotation	downstream_gene_variant; intron_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000373713, ENST00000482018, ENST00000497275, ENST00000498148); intron_variant(ENST00000344147, ENST00000373714, ENST00000546109, ENST00000615916, ENST00000616393, ENST00000616859, ENST00000618216, ENST00000627541)
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	A/G		allele test P-value = 0.9239, genotype test P-value = 1 allele test P-value = 0.9239, genotype test P-value = 1	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: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
ZCCHC17	zinc finger, CCHC domain containing 17	1p35.2	Mapped by Literature SNP
FABP3	fatty acid binding protein 3, muscle and heart	1p33-p32	2(1/1/0)

SNPs in LD with rs6663779 (count: 20) View in gBrowse (chr1:31238562..31390816 )

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]
rs4949377	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.885[CHB]; 1.0[CHD]; 0.811[JPT]
rs41367046	intron_variant; non_coding_transcript_variant	0.942[CHB]; 1.0[CHD]; 1.0[JPT]
rs16834327	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.885[CHB]; 0.811[JPT]
rs951545	intron_variant; NMD_transcript_variant; upstream_gene_variant	0.942[CHB]; 1.0[CHD]; 1.0[JPT]
rs12724265	intron_variant; non_coding_transcript_variant	0.937[CHB]; 1.0[JPT]
rs3766295	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.833[JPT]
rs2279885	intron_variant; NMD_transcript_variant; upstream_gene_variant	0.942[CHB]; 0.91[JPT]
rs7534465		0.801[CHD]
rs2292165	3_prime_UTR_variant; downstream_gene_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	0.885[CHB]; 1.0[CHD]
rs4949371	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.885[CHB]; 1.0[CHD]; 0.811[JPT]
rs7532845	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.942[CHB]; 1.0[CHD]; 1.0[JPT]
rs16834408	downstream_gene_variant	0.942[CHB]; 1.0[CHD]; 1.0[JPT]
rs3766294	3_prime_UTR_variant; downstream_gene_variant	0.925[CHB]; 1.0[JPT]
rs12062090	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.942[CHB]; 1.0[JPT]
rs16834280	upstream_gene_variant	0.885[CHB]; 0.958[CHD]; 0.811[JPT]
rs4949383	intron_variant; non_coding_transcript_variant	0.942[CHB]; 1.0[JPT]
rs10914347	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.942[CHB]; 1.0[CHD]; 1.0[JPT]
rs875787	intron_variant	0.885[CHB]; 0.811[JPT]
rs6696452	downstream_gene_variant; intron_variant	0.942[CHB]; 1.0[JPT]
rs3766287	downstream_gene_variant; intron_variant; upstream_gene_variant	0.88[CHB]; 0.811[JPT]

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

Reference	Statistical Result	Description	Result Category
Iwayama, Y., 2010	allele test P-value = 0.8552, genotype test P-value = 0.8512	None of the 8 SNPs showed association with schizophrenia.	Negative

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