SNP Report
Basic Info
| Name | rs2108977 dbSNP Ensembl | ||
|---|---|---|---|
| Location | 11:18019049 - 18019049(+) | ||
| Variant Seq | C | ||
| Ref Seq | T | ||
| Minor Allele Frequence | 0.437101 | ||
| Annotation | downstream_gene_variant; 3_prime_UTR_variant; intron_variant; non_coding_transcript_variant | ||
| Variant Effect | downstream_gene_variant(ENST00000417164, ENST00000525406); 3_prime_UTR_variant(ENST00000250018); intron_variant(ENST00000525523); non_coding_transcript_variant(ENST00000525523) | ||
| SIFT Annotation | tolerated | ||
| SIFT Variant Effect | tolerated(ENST00000250018) | ||
| PolyPhen Annotation | possibly_damaging | ||
| PolyPhen Variant Effect | possibly_damaging(ENST00000250018) | ||
| rSNP? | Yes Link in rVarBase | ||
| Related Regulatory Elements | Chromatin interactive region | ||
| Chromatin State | Weak transcription | ||
| No. of Marker's Association Results | 1 (Positive: 1; Negative: 0; Trend: 0) | ||
| Source | Literature | ||
SNP related association results
| Reference | Phenotype | Statistical Values | Author Comments | Marker's Category |
|---|---|---|---|---|
| Goenjian, A. K.,2012 | PTSD-RI (PTSD symptoms) | After adjusting for age, sex, exposure and environmental var...... After adjusting for age, sex, exposure and environmental variables, the family based variance component analyses of PTSD-RI with the 't' allele of SNP rs2108977: X2=8.44, df=1, P-value < 0.004. Lod score=1.05. More... | After adjusting for age, sex, exposure and environmental var...... After adjusting for age, sex, exposure and environmental variables, the family based variance component analyses revealed a significant association of PTSD-RI with the 't' allele of TPH1 SNP rs2108977. This gene explained 3% of the variance in PTSD-RI scores. More... | Significant |
SNP related genes (count: 2)
| Approved Symbol | Approved Name | Location | No. of Association Results (Positive/Negative/Trend)  |
|---|---|---|---|
| SERGEF | secretion regulating guanine nucleotide exchange factor | 11p14.3 | Mapped by LD-proxy, rSNP target |
| TPH1 | tryptophan hydroxylase 1 | 11p15.3-p14 | 5(1/4/0) |
SNPs in LD with rs2108977 (count: 18)
Literature-origin SNPs (count: 0)
LD-proxies (count: 18)
SNP related eQTL (count: 1)