SNP Report

Basic Info

Name	rs7684329 dbSNP Ensembl
Location	4:33745802 - 33745802(+)
Variant Seq	T
Ancestral Allele	C
Ref Seq	C
Minor Allele Frequence	0.202476
Annotation	upstream_gene_variant
SIFT Annotation	deleterious; tolerated
SIFT Variant Effect	deleterious(ENST00000621961); tolerated(ENST00000511884)
PolyPhen Annotation	benign
PolyPhen Variant Effect	benign(ENST00000511884, ENST00000621961)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Active TSS
No. of Marker's Association Results	1 (Positive: 0; Negative: 0; Trend: 1)
Source	Literature

SNP related association results

Normal genetic study related association results (count: 1)

Reference	Phenotype	Statistical Values	Author Comments	Marker's Category
Almli, L. M.,2015	PTSD Symptoms as measured by the quantitave CAPS scores	In (SBPBC cohort) discovery stage: (sex and top three princ...... In (SBPBC cohort) discovery stage: (sex and top three principal components as covariates) B (SE)=27.04 (5.38), P-value=1.47E-06. More...	None None	Trend

SNP related genes (count: 0)

SNPs in LD with rs7684329 (count: 96)

The LD data used here is based on 1000 Genome Phase I. LD SNP pairs were selected with a threshold r²<=0.8.

Literature-origin SNPs (count: 2)

rs_ID	Annotation	No. of Association Results(Positive/Negative/Trend)	r²[population]

rs717947		1(1/0/0)	0.8083[EUR]
rs13104973	intron_variant(ENST00000512581); non_coding_transcript_variant(ENST00000512581)	1(0/0/1)	0.9443[EUR]

LD-proxies (count: 94)

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs28479420	rs7684329	upstream_gene_variant	0.8023[EUR]
rs35506174	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8245[AMR]
rs28538874	rs7684329	intron_variant; non_coding_transcript_variant	0.8023[EUR]
rs1838400	rs7684329	upstream_gene_variant	0.8082[AMR]
rs6852504	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9303[EUR]; 0.8884[AMR]
rs13114401	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs2166110	rs7684329	upstream_gene_variant	0.8023[EUR]; 0.8218[AMR]
rs12648131	rs7684329	upstream_gene_variant	0.8023[EUR]
rs7673977	rs7684329	upstream_gene_variant	0.8023[EUR]
rs61139508	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9719[EUR]; 0.9895[AFR]; 1.0000[AMR]
rs12645598	rs13104973 rs7684329 rs717947	upstream_gene_variant	1.0000[EUR]; 0.8973[AFR]; 1.0000[AMR]
rs1838404	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8894[AMR]
rs67906834	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9579[EUR]; 0.8884[AMR]
rs35534223	rs7684329	intron_variant; non_coding_transcript_variant	0.8033[AMR]
rs7680059	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9303[EUR]; 0.8884[AMR]
rs13126161	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs68130551	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs7694226	rs7684329	upstream_gene_variant	0.8023[EUR]
rs7659816	rs7684329	upstream_gene_variant	0.8023[EUR]
rs13111438	rs7684329	upstream_gene_variant	0.8023[EUR]
rs35069317	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs35107776	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9719[EUR]; 0.9895[AFR]; 1.0000[AMR]
rs4444815	rs7684329	upstream_gene_variant	0.8023[EUR]
rs34911043	rs7684329	upstream_gene_variant	0.8023[EUR]
rs2166108	rs7684329	upstream_gene_variant	0.8218[AMR]
rs28819970	rs7684329	upstream_gene_variant	0.8023[EUR]
rs1348541	rs7684329	upstream_gene_variant	0.8023[EUR]
rs13132539	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs1373493	rs7684329	upstream_gene_variant	0.8023[EUR]
rs34229754	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs35041609	rs7684329	intron_variant; non_coding_transcript_variant	0.8515[AMR]
rs59660596	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9719[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs16989140	rs7684329 rs717947	upstream_gene_variant	0.8083[EUR]
rs12648086	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9030[EUR]
rs13133597	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8709[AMR]
rs73132844	rs13104973 rs7684329 rs717947	intron_variant; non_coding_transcript_variant	1.0000[EUR]
rs35698610	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs6810417	rs7684329	upstream_gene_variant	0.8023[EUR]
rs13112341	rs7684329	upstream_gene_variant	0.8023[EUR]
rs1373494	rs7684329	upstream_gene_variant	0.8023[EUR]
rs7676477	rs7684329	upstream_gene_variant	0.8023[EUR]
rs67281747	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9579[EUR]; 0.8884[AMR]
rs7672940	rs13104973 rs7684329 rs717947	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs71602010	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8281[AFR]; 0.8724[AMR]
rs10517294	rs13104973 rs7684329 rs717947	intron_variant; non_coding_transcript_variant	1.0000[EUR]; 0.9070[AFR]; 1.0000[AMR]
rs16989190	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9579[EUR]; 0.8081[AFR]; 0.8709[AMR]
rs67910708	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs13134089	rs13104973 rs7684329 rs717947	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs13140898	rs7684329	upstream_gene_variant	0.8023[EUR]
rs67239648	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9579[EUR]; 0.8073[AFR]; 0.8884[AMR]
rs34357057	rs13104973 rs7684329	upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.8485[EUR]
rs2166109	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8033[AMR]
rs7691242	rs7684329	upstream_gene_variant	0.8023[EUR]
rs67441316	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9443[EUR]; 0.8073[AFR]; 0.8884[AMR]
rs59554896	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9303[EUR]; 0.8374[AFR]; 0.8894[AMR]
rs36076196	rs7684329	upstream_gene_variant	0.8468[EUR]; 0.8061[AMR]
rs10033782	rs7684329	upstream_gene_variant	0.8023[EUR]
rs16995875	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs61548475	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.8901[EUR]
rs6847534	rs7684329	intron_variant; non_coding_transcript_variant	0.8023[EUR]
rs1822683	rs7684329	upstream_gene_variant	0.8023[EUR]
rs35304177	rs7684329	upstream_gene_variant	0.8218[AMR]
rs6825189	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8374[AFR]; 0.8894[AMR]
rs7689692	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8894[AMR]
rs35639548	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9719[EUR]; 0.9895[AFR]; 1.0000[AMR]
rs16989207	rs7684329	upstream_gene_variant	0.8023[EUR]
rs7665834	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8400[AMR]
rs13149722	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9170[EUR]; 0.8216[AMR]
rs12645118	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8374[AFR]; 0.8894[AMR]
rs7689523	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8894[AMR]
rs6858079	rs7684329	upstream_gene_variant	0.8023[EUR]; 0.8218[AMR]
rs13123502	rs7684329	intron_variant; non_coding_transcript_variant	0.8219[EUR]
rs7688152	rs13104973 rs7684329 rs717947	upstream_gene_variant	1.0000[EUR]; 1.0000[AFR]; 1.0000[AMR]
rs13139684	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs13102670	rs13104973 rs7684329	upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9041[EUR]; 0.8061[AMR]
rs6832462	rs13104973 rs7684329 rs717947	intron_variant; non_coding_transcript_variant	1.0000[EUR]
rs66770627	rs13104973 rs7684329 rs717947	intron_variant; non_coding_transcript_variant	1.0000[EUR]; 0.8569[AFR]; 0.8894[AMR]
rs57166361	rs7684329	upstream_gene_variant	0.8023[EUR]
rs3910837	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]; 0.8181[AFR]; 0.8894[AMR]
rs13147878	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9579[EUR]; 0.8266[AFR]; 0.8884[AMR]
rs66568044	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9163[EUR]; 0.8342[AMR]
rs35872036	rs7684329	upstream_gene_variant	0.8023[EUR]
rs1838405	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9170[EUR]
rs1454600	rs7684329 rs717947	upstream_gene_variant	0.8083[EUR]
rs1822681	rs13104973 rs7684329 rs717947	intron_variant; non_coding_transcript_variant	1.0000[EUR]; 0.8173[AMR]
rs34151233	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.9438[EUR]; 0.8335[AMR]
rs34951063	rs13104973 rs7684329 rs717947	upstream_gene_variant	0.8891[EUR]
rs7693464	rs7684329	upstream_gene_variant	0.8023[EUR]
rs68074884	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs35999284	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9443[EUR]
rs7691401	rs7684329	upstream_gene_variant	0.8023[EUR]
rs66577325	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8400[AMR]
rs28439288	rs13104973 rs7684329	upstream_gene_variant	0.8653[EUR]
rs13143780	rs13104973 rs7684329	intron_variant; non_coding_transcript_variant	0.9310[EUR]; 0.8724[AMR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
CRHR1-IT1	Yes	Adipose Subcutaneous	cis	GTEx