SP162 Genome Browser

Genome browser

Jump to locus

BLAST search

NCBI BLAST+ against provided SP162 ortholog DBs.

Search mode Sequence (FASTA or raw)

MMseqs2 ortholog search

Faster ortholog hits

Query type

Max hits

Sequence (FASTA or raw)

Sequence fetcher

CDS / protein / genomic slice

Gene ID Type

Or genomic region

CRISPR gRNA designer (FlashFry)

Genome-level off-targets

PAM guide: NGG (SpCas9, INDELs), NGA/NGCG (SpCas9-like; base editors often NG-compatible for C→T or A→G windows), TTTV (Cpf1/Cas12a; staggered cut), NNGRRT (SaCas9, INDELs). Avoid guides spanning splice junctions; those are filtered out.

PAM

Max mismatches

Off-target search space

Max off-target count

Gene ID (optional) Candidate gene/region sequence

Downloads

Reference files

Genome FASTA (bgzip)
Annotation GFF3 (bgzip + tbi)
CDS FASTA
Protein FASTA

How to cite

Please cite these resources

SP162 portal: New Phytologist (doi:10.1111/nph.70919)
MMseqs2: Steinegger & Söding, Nat Biotechnol 2017
FlashFry: McKenna & Shendure, BMC Biol 2018

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