Design Strategy

We provide two design strategies: (1) targeting single TE copy and (2) targeting the entire TE subfamily.

To target copies from a TE subfamily, we adopted a greedy-search approach to find optimal combination of 3 sgRNAs to target as much copies.

Genome Assembly

We are now supporting Genome Assembly

Human: GRCh38/hg38
Mouse: GRCm38/mm10
Reference downloads
GRCh38_Ensembl_rmsk_TE.gtf mm10_fullAnnotation.bed GRCm38_Ensembl_rmsk_TE.gtf hg38_fullAnnotation.bed

Transposable elements (TE)

Our annotation of transposable elements are based on repeatmasker.


Search for TE by subfamily name
Select TE Subfamily

Search for TE by genomic coordinate

Design For

Genome Assembly

Targeting TE Copy


Input a name of TE copy:
<TE-SUBFAMILY>_copy<COPY-NUMBER>
Submit Search for sequence