SNP Report

Basic Info

Name	rs7098848 dbSNP Ensembl
Location	10:60081386 - 60081386(+)
Variant Seq	G
Ancestral Allele	G
Ref Seq	A
Minor Allele Frequence	0.0900559
Annotation	downstream_gene_variant; upstream_gene_variant; intron_variant
Variant Effect	downstream_gene_variant(ENST00000622427, ENST00000508449); upstream_gene_variant(ENST00000511043, ENST00000365320); intron_variant(ENST00000355288, ENST00000280772, ENST00000503366, ENST00000616444, ENST00000373827, ENST00000610321, ENST00000618374, ENST00000373820)
SIFT Annotation	deleterious_-_low_confidence; deleterious
SIFT Variant Effect	deleterious_-_low_confidence(ENST00000503366, ENST00000618374, ENST00000373827, ENST00000355288); deleterious(ENST00000616444, ENST00000280772, ENST00000610321)
PolyPhen Annotation	benign; probably_damaging; possibly_damaging
PolyPhen Variant Effect	benign(ENST00000503366, ENST00000616444, ENST00000618374, ENST00000610321); probably_damaging(ENST00000355288); possibly_damaging(ENST00000373827, ENST00000280772)
rSNP?	Yes Link in rVarBase
Related Regulatory Elements	n/a
Chromatin State	Weak transcription;Strong transcription
No. of Marker's Association Results	1 (Positive: 1; Negative: 0; Trend: 0)
Source	Literature

SNP related association results

Normal genetic study related association results (count: 1)

Reference	Phenotype	Statistical Values	Author Comments	Marker's Category
Logue, M. W.,2013	PTSD	OR=0.53, P-value=0.0028, corrected P-value=0.20 OR=0.53, P-value=0.0028, corrected P-value=0.20	The SNP was associated with PTSD at the P-value<0.01 level. The SNP was associated with PTSD at the P-value<0.01 level.	Significant

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Association Results (Positive/Negative/Trend)
ANK3	ankyrin 3, node of Ranvier (ankyrin G)	10q21	2(2/0/0)

SNPs in LD with rs7098848 (count: 10)

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

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

rs7917800	downstream_gene_variant(ENST00000508449, ENST00000622427); upstream_gene_variant(ENST00000365320); intron_variant(ENST00000503366, ENST00000610321, ENST00000511043, ENST00000280772, ENST00000373820, ENST00000373827, ENST00000618374, ENST00000355288, ENST00000616444)	1(1/0/0)	0.9325[EUR]

rs_ID	Literature-origin SNPs with LD	Annotation	r²[population]
rs10994185	rs7098848 rs7917800	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9728[EUR]
rs41274682	rs7098848 rs7917800	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9728[EUR]
rs11593609	rs7098848 rs28932171 rs7917800 rs17208576 rs11599164	downstream_gene_variant; upstream_gene_variant; intron_variant	0.8044[EUR]
rs72818490	rs7098848 rs28932171 rs7917800 rs17208576 rs11599164	downstream_gene_variant; upstream_gene_variant; intron_variant	0.9863[EUR]
rs41274684	rs7098848 rs7917800	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9728[EUR]
rs10509122	rs7098848 rs7917800	downstream_gene_variant; upstream_gene_variant; intron_variant; non_coding_transcript_variant	0.9728[EUR]
rs2393595	rs7098848 rs7917800	downstream_gene_variant; upstream_gene_variant; intron_variant; splice_region_variant; non_coding_transcript_variant	0.9728[EUR]
rs17208611	rs7098848 rs28932171 rs7917800 rs17208576 rs11599164	downstream_gene_variant; upstream_gene_variant; intron_variant	0.8044[EUR]
rs11593500	rs7098848 rs28932171 rs7917800 rs17208576 rs11599164	downstream_gene_variant; upstream_gene_variant; intron_variant	0.8044[EUR]

SNP related eQTL (count: 1)

Gene Symbol	Gene Existed in PTSDgene?	Tissue	Trans/Cis	Source
RP11-259G18.3	No	Adipose Subcutaneous	cis	GTEx