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chr5_1523797_T_C

chr5:1523797 · GRCh38T → Crs1736750160gnomAD AF <0.001%ATAC_only
nearest gene · LPCAT1 · within gene

For a non-coding regulatory variant the nearest gene by distance is frequently not the regulated gene.

Receptor variant-effect scores

PXR
-0.074Neutral
FXR
-0.025Neutral
AhR
-0.266LoF
-1 LoF0+1 GoF

Strongest effect: AhR LoF at p99-scaled -0.266. Impact is moderate on the receptor-specific p99 scale.

The p99-scaled score divides the raw delta by the receptor-specific 99th percentile of |delta| in the reference peak population, then clips to −1 to 1. It is a comparable effect scale, not a percentile rank. AhR is exploratory, from a single replicate.

Cross-annotations

No external database record for this variant. It is a scored in silico saturation SNV.

Mirrored from ClinVar, GTEx, GWAS Catalog, JASPAR/FIMO, gnomAD and phyloP. See Databases.

Region confidence

In receptor peaks: none