SNP Report

Basic Info

Name	rs1029888 dbSNP Ensembl
Location	chr7:148772624 - 148772624(1)
Variant Alleles	C/T
Ancestral Allele	T
Minor Allele	C
Minor Allele Frequence	0.214058
Functional Annotation	intron_variant.
Consequence to Transcript	intron_variant(ENST00000325222, ENST00000409469, ENST00000602748, ENST00000617797)
No. of Studies	1 (Positive: 1; Negative: 0; 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
Chen, X., 2015	C/T		P-value=8E-29,Â OR=3.07, 95%CI=2.51-3.75 P-value=8E-29,Â OR=3.07, 95%CI=2.51-3.75	Chromosome 7 associated SNPs and flanking genes for bipolar ...... Chromosome 7 associated SNPs and flanking genes for bipolar disorder (BPD) from Affymetrix Genome-wide Human SNP Array 6.0 in the population of Shandong province of China. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
CUL1	cullin 1	7q36.1	1(1/0/0)

SNPs in LD with rs1029888 (count: 47) View in gBrowse (chr7:148744308..148875412 )

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: 47)

rs_ID	Functional Annotation	r²[population]
rs10274535	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.945[CHB]; 0.945[CHD]; 0.933[JPT]
rs734003	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs10215159	intron_variant	1.0[CHB]; 1.0[JPT]
rs10274701	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.939[CHB]; 1.0[JPT]
rs3807451	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.943[CHB]; 0.933[JPT]
rs10233740	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.947[CHB]; 0.933[JPT]
rs740949	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs10255478	downstream_gene_variant	1.0[CHB]; 0.933[JPT]
rs734004	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs10216219	intron_variant	1.0[CHB]; 1.0[JPT]
rs7785022	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.947[CHB]; 0.946[CHD]; 0.933[JPT]
rs6959647	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.947[CHB]; 0.933[JPT]
rs1014095	intron_variant	0.832[CHB]; 0.919[CHD]; 1.0[JPT]
rs243480	intron_variant	1.0[CHB]; 0.946[CHD]; 1.0[JPT]
rs2072406	intron_variant	1.0[CHB]; 1.0[JPT]
rs2072408	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs4726996	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.945[CHB]; 0.929[JPT]
rs3779037	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.947[CHB]; 0.946[CHD]; 0.933[JPT]
rs7802887	intron_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs6977453	intron_variant	1.0[CHB]; 1.0[JPT]
rs6464925	intron_variant	1.0[CHB]; 1.0[JPT]
rs3800949	intron_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs10241408	intron_variant	1.0[CHB]; 1.0[JPT]
rs887569	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.933[JPT]
rs1558419	intron_variant	1.0[CHB]; 1.0[CHD]; 0.935[JPT]
rs933436	intron_variant	0.946[CHB]; 1.0[CHD]; 1.0[JPT]
rs6975291	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.898[CHB]; 0.933[JPT]
rs243486	intron_variant	0.862[CHB]; 0.842[JPT]
rs740951	intron_variant	1.0[CHB]; 1.0[JPT]
rs9691534	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.944[CHB]; 0.919[CHD]; 0.854[JPT]
rs1544571	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.945[CHB]; 0.933[JPT]
rs734002	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs10215794	intron_variant	1.0[CHB]; 1.0[JPT]
rs243487	intron_variant	1.0[CHB]; 1.0[JPT]
rs1558420	intron_variant	1.0[CHB]; 1.0[JPT]
rs734005	downstream_gene_variant; intron_variant; NMD_transcript_variant	1.0[CHB]; 0.933[JPT]
rs6956231	intron_variant	1.0[CHB]; 0.946[CHD]; 1.0[JPT]
rs2007404	intron_variant; splice_region_variant	0.946[CHB]; 1.0[CHD]; 1.0[JPT]
rs1019218	intron_variant	0.946[CHB]; 1.0[JPT]
rs3779038	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.947[CHB]; 0.933[JPT]
rs2072407	intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	1.0[CHB]; 0.973[CHD]; 0.933[JPT]
rs243495	intron_variant	0.838[CHB]
rs9987055	downstream_gene_variant	1.0[CHB]; 0.917[CHD]; 0.933[JPT]
rs3807450	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CHB]; 0.946[CHD]; 0.933[JPT]
rs3823637	intron_variant	0.842[CHB]; 0.855[JPT]
rs10225300	downstream_gene_variant	1.0[CHB]; 0.933[JPT]
rs1880358	intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	0.947[CHB]; 0.892[CHD]; 0.933[JPT]

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

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