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DeepSpCas9variants designs guide RNAs and predicts the efficiency of CRISPR–Cas9 (SpCas9) and various SpCas9 variants with optimized scaffold.
It supports:
SpCas9
Sniper-Cas9
xCas9
eSpCas9 (1.1)
SpCas9-HF1
HypaCas9
evoCas9
VRQR variant
SpCas9-NG
The general specificities (fidelity) of SpCas9 variants: evoCas9 (the highest specificity) ≫ HypaCas9 ≥ SpCas9-HF1 ≈ eSpCas9(1.1) > xCas9 > Sniper-Cas9 > SpCas9.
Homology-directed repair (HDR) donor templates. When an input format describes an intended edit — an unedited/edited sequence pair, ClinVar ID or COSMIC ID — the results also carry what each guide needs for HDR: the cut site, the cut-to-edit distance, the donor template in the chosen type and orientation(s) (default: a single-stranded oligo on the sense strand, 100 nt homology arms each side), the realised arm lengths, an optional PAM-blocking mutation, and the candidate's rank among the target's guides. There is no HDR mode switch: the input format decides.
Note: DeepCas9variants (select DeepCas9variants in the Comparison Mode within DeepBE) provides guide RNA designs and efficiency predictions for six additional Cas9 variants. DeepSpCas9, DeepSpCas9-NG, and DeepxCas9 provide guide RNA designs and efficiency predictions for SpCas9, SpCas9-NG, and xCas9 with conventional scaffold.
DeepCas9variants
