SNP Report

Basic Info

Name	rs4821907 dbSNP Ensembl
Location	chr22:39528438 - 39528438(1)
Variant Alleles	G/C
Ancestral Allele	G
Minor Allele	C
Minor Allele Frequence	0.270168
Functional Annotation	downstream_gene_variant.
Consequence to Transcript	downstream_gene_variant(ENST00000334678, ENST00000420879, ENST00000459956, ENST00000472291, ENST00000488602, ENST00000491966)
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
Kakiuchi, C., 2007 (b)	C/G		Fisher's exact test, genotypic P-value = 0.929, allelic P-va...... Fisher's exact test, genotypic P-value = 0.929, allelic P-value = 0.805 in MDMD samples, Fisher's exact test, genotypic P-value = 0.696, allelic P-value = 0.603 in MPS samples, Fisher's exact test, genotypic P-value = 0.62, allelic P-value = 0.518 in total samples; TDT P-value = 0.577, X²=0.311 in NIMH trios More...	There were no significant differences in both genotype and a...... There were no significant differences in both genotype and allele frequencies in both of total samples and independently collected age-matched samples. TDT analysis also showed no association of the SNP to the illness. More...	Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
RPS19BP1	ribosomal protein S19 binding protein 1	22q13.1	Mapped by Literature SNP
ATF4	activating transcription factor 4	22q13.1	1(1/0/0)

SNPs in LD with rs4821907 (count: 16) View in gBrowse (chr22:39501787..39546085 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Functional Annotation	r²[population]
rs5750847		0.955[CEU]; 0.833[CHB]
rs4820379	downstream_gene_variant; intron_variant; NMD_transcript_variant	0.957[CEU]; 0.844[CHB]
rs2294360	intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	0.877[JPT]
rs6001620		0.826[CEU]
rs6001618		0.904[CHB]
rs5750844	downstream_gene_variant	1.0[CEU]; 0.91[CHB]; 0.877[JPT]
rs1048310	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	0.955[CEU]; 1.0[CHB]; 1.0[JPT]
rs760716		1.0[CEU]; 0.826[CHB]; 0.877[JPT]
rs742143	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant; upstream_gene_variant	0.877[JPT]
rs5757703	upstream_gene_variant	1.0[CEU]; 0.911[CHB]
rs5750849		0.84[CHB]
rs9623015		0.813[CHB]
rs710192	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	0.955[CEU]; 0.91[CHB]; 1.0[JPT]
rs4821905	intron_variant; NMD_transcript_variant	0.904[CHB]; 0.863[JPT]
rs5757715		0.833[CHB]
rs10854722	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant	0.955[CEU]; 1.0[CHB]; 1.0[JPT]

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

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