BDgene

SNP Report

Basic Info
Name rs6580038 dbSNP Ensembl
Location chr5:153753281 - 153753281(1)
Variant Alleles C/T
Ancestral Allele T
Minor Allele C
Minor Allele Frequence 0.28115
Functional Annotation intron_variant; upstream_gene_variant.
Consequence to Transcript intron_variant(ENST00000285900, ENST00000340592, ENST00000448073, ENST00000518142, ENST00000518783, ENST00000521843); upstream_gene_variant(ENST00000476596)
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
Shi, J., 2008 (b) A/G G Allelic association of neurotransmission systems genes with ...... Allelic association of neurotransmission systems genes with bipolar disorder: TDT P-value = 0.0264, Gene-wide P-value = 0.3586 (P values were based on permutation for all SNPs in each gene). More... Positive

SNP related genes (count: 2)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
GRIA1 glutamate receptor, ionotropic, AMPA 1 5q33 2(2/0/0)
RN7SL177P RNA, 7SL, cytoplasmic 177, pseudogene 5q33.2 Mapped by Literature SNP

SNPs in LD with rs6580038 (count: 59) View in gBrowse (chr5:153716358..153832482 )
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: 59)


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

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

Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback Acknowledgements
To view this website normally, please make sure to allow Flash to run from the local filesystem in the security settings panel.
Last update: March 31, 2016