Busca sequência PAM
- Created by
- Renato Passos, Eng. de Software
- Reviewed by
- Renato Passos, Eng. de Software
Last updated: Apr 18, 2026
Formula
NGG ≈ 1/10 bp
About this calculator
The PAM sequence search calculator is an online tool that identifies the NGG pattern in DNA strands, critical for CRISPR-Cas9 gene editing. The NGG PAM (Protospacer Adjacent Motif) is recognized by SpCas9, the most common enzyme in CRISPR systems. The tool scans the user-input sequence for all NGG occurrences.
It operates using a probability model of 1 in 10 base pairs (NGG ≈ 1/10 bp), automatically calculating the positions where the pattern appears. It is used in labs and research to design efficient gRNA guides, ensuring SpCas9 cuts the target DNA accurately.
Ensure the input sequence is compatible with CRISPR-Cas9 systems and the NGG PAM is correctly positioned. For large sequences, results may include multiple PAMs requiring manual selection. This tool is not a substitute for specialized software but provides quick preliminary screening.
Frequently asked questions
What is an NGG PAM sequence?
NGG PAM (Protospacer Adjacent Motif) is a three-base pattern (A, T, C, G) recognized by SpCas9 to cut DNA, essential for CRISPR-Cas9 gene editing.
How does the tool calculate PAM positions?
The tool uses statistical probability (1 in 10 base pairs, NGG ≈ 1/10 bp) to identify all NGG pattern occurrences in the input sequence.
Can I use this calculator for other PAM types?
No, this model is specific to SpCas9's NGG pattern. Other CRISPR systems like SaCas9 use different PAMs (e.g., NAG).
Why must PAMs be in the 3' direction of the sequence?
SpCas9 recognizes PAMs after the guide RNA, on the DNA's 3' end. The tool assumes this orientation for biologically relevant results.