DANGER analysis result using RNA-seq data derived from WT and park7 (dj1) edited brains of Danio rerio. (A) Comparison between the GRCz11 reference genome and transcript sequence constructed by de novo assembly of RNA-seq samples derived from WT brain on park7 on-target region. The on-target region of the GRCz11 reference genome is illustrated with annotations of the park7 CDS, the protospacer, and the NGG PAM sequence of SpCas9. The detected park7 isoforms (1–2) are lined up in the box. The Cas9–sgRNA binding sites are highlighted. (B) Comparison of TPM values of park7. The TPM was measured from WT and edited RNA-seq samples (each n = 3); data were expressed as the means±SEM. ***P-value <.001 of two-sided Welch’s t-test. (C) The gene counts are classified by MM number related to the on-target sequence. The brackets indicate the number of transcripts, including those with and without identified gene annotations. (D) Distribution of the D-index of each GO term associated with Biological Process. The sum of all D-indices and the number of D-indices (N) is labeled on the top right. (E) The list of all significant D-indices in the optimized dTPM. The D-index values are indicated by bar graphs adjacent to the GO terms.
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