SNP Report

Basic Info

Name	rs6518289 dbSNP Ensembl
Location	chr21:46367087 - 46367087(1)
Variant Alleles	T/C
Ancestral Allele	T
Minor Allele	T
Minor Allele Frequence	0.16234
Functional Annotation	missense_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant. Polyphen Annotation: benign(ENST00000359568) SIFT Annotation: tolerated(ENST00000359568)
Consequence to Transcript	missense_variant(ENST00000359568); non_coding_transcript_exon_variant(ENST00000480896); non_coding_transcript_variant(ENST00000480896)
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
Anitha, A., 2008	C/T		Genotypic P-value = 0.421, allelic P-value = 0.534 for BD wh...... Genotypic P-value = 0.421, allelic P-value = 0.534 for BD when compared with controls. More...	none of the SNPs analyzed in our study showed a significant ...... none of the SNPs analyzed in our study showed a significant association with bipolar disorder More...	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
PCNT	pericentrin	21q22.3	1(0/1/0)

SNPs in LD with rs6518289 (count: 37) View in gBrowse (chr21:46337878..46550301 )

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: 37)

rs_ID	Functional Annotation	r²[population]
rs7279193	intron_variant; non_coding_transcript_variant	0.863[CHB]; 0.964[CHD]
rs8134014	intron_variant	0.829[JPT]
rs4143362	intron_variant	0.829[JPT]
rs2839235	intron_variant; non_coding_transcript_variant	0.857[CHD]; 0.884[JPT]
rs2839262	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	0.829[JPT]
rs9306152	intron_variant; non_coding_transcript_variant	0.883[JPT]
rs2839234	intron_variant; non_coding_transcript_variant	0.857[CHD]; 0.884[JPT]
rs4819239	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs4819241	intron_variant; non_coding_transcript_variant	0.863[CHB]; 0.964[CHD]; 0.829[JPT]
rs12627695	downstream_gene_variant; intron_variant; upstream_gene_variant	0.829[JPT]
rs2839226	intron_variant; non_coding_transcript_variant; splice_region_variant	0.863[CHB]; 0.964[CHD]; 0.941[JPT]
rs9983528	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.849[CHB]
rs2839271	downstream_gene_variant; intron_variant	0.829[JPT]
rs2330591	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs8132320	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs2839267	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs2839292	intron_variant	0.829[JPT]
rs17371795	downstream_gene_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; synonymous_variant; upstream_gene_variant	0.829[JPT]
rs2078203	intron_variant; upstream_gene_variant	0.829[JPT]
rs2839274	intron_variant	0.829[JPT]
rs2839232	intron_variant; non_coding_transcript_variant	0.863[CHB]; 0.857[CHD]; 0.884[JPT]
rs3788261	intron_variant; non_coding_transcript_variant	0.884[JPT]
rs8134832	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.829[JPT]
rs2032110	intron_variant	0.829[JPT]
rs7279052	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs4818837	intron_variant; non_coding_transcript_variant	0.823[JPT]
rs2839228	non_coding_transcript_exon_variant; non_coding_transcript_variant; synonymous_variant	0.931[CHB]; 0.941[JPT]
rs7282296	intron_variant	0.829[JPT]
rs2839240	intron_variant; non_coding_transcript_variant	0.857[CHD]; 0.829[JPT]
rs11089076	intron_variant; non_coding_transcript_variant	0.827[JPT]
rs762251	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs2839283	intron_variant	0.829[JPT]
rs2839273	intron_variant	0.829[JPT]
rs10854482	intron_variant; non_coding_transcript_variant	0.829[JPT]
rs9979962	downstream_gene_variant; intron_variant; upstream_gene_variant	0.829[JPT]
rs9979185	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.862[CHB]; 0.87[JPT]
rs9637222	intron_variant; non_coding_transcript_variant	0.867[JPT]

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

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