user-defined upper limit for the number of target sequences returned
Alignment
region of similarity between target and query sequences
E-value
a BLAST statistic representing the significance of an alignment, values close to zero
indicate high sequence similarity with low probability of the similarity occurring by chance
Identities
the number of exact nucleotide or amino acid matches over the alignment, expressed as a fraction
and a percentage
Query Coverage
the length of the query sequence that matches the target sequence in the
alignment
Bit Score
a BLAST statistic measuring the quality of an alignment, higher values indicate a
more significant match
Span
the length of the alignment, including gaps
About Search by Sequence
Search by Sequence performs a nucleotide-nucleotide or protein-translated nucleotide BLAST search against
Addgene’s plasmid sequence database.
BLAST returns plasmids with similarity to the query sequence.
Results are sorted by E-value, a statistic from BLAST that describes the significance of a match.
Lower values are considered better matches.
FASTA headers and numbers at the beginning of each line will be removed.
The query should only contain DNA characters.
Tips for Success
Enter a distinct sequence that is an important, differentiating feature. For example, the coding region of
a gene, instead of the plasmid origin of replication.
Inspect the percent identity, query coverage, and alignment details to determine if a result match is satisfactory.
Visit the corresponding plasmid webpage to view additional details about a matching plasmid.
If no results are returned:
Try a different isoform or region of the desired sequence.
Choose a different BLAST database. Try the general “All Addgene Plasmids” (default selection),
instead of a specific database, such as “Plant Expression Plasmids”
Try selecting a different BLAST algorithm:
megablast: Designed for comparing sequences within the same, or closely related, species.
Default selection.
blastn: Designed for comparing sequences from different species. May return additional results,
if exact species match is not required.
blastn-short: Optimized for searching with shorter sequences (<= 30 nucleotides)
but can still be effective with slightly larger sequences.
tblastn: Designed for comparing protein sequences against a translated nucleotide sequence database.
Helpful for finding plasmids with codon-optimized sequences.
tblastn-fast: A faster version of tblastn that may return results more quickly, but is less sensitive
There may not be a match in our database.
You can adjust the Max Results setting on the results page from 25 to 500. If many sequences share the same top E-value,
only a truncated set of equally high-scoring matches will be shown. Set the Max Results to 500 to see more matches.
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Also referred to as mRGNndm-1. Expresses Cas9, tracrRNA and a guide RNA which target the NDM-1 gene. Contains an R1162 origin and chloramphenicol resistance. Can be mobilized by S17-1 lambda pir.
pJL1 plasmid encoding superfolder GFP modified at the C-terminus with 30 amino acids containing a non-permissible AQNAT sequon followed by a 6x-His tag
pJL1 plasmid encoding superfolder GFP modified at the C-terminus with 32 amino acids containing the minimum optimal O-linked recognition site (MOOR) followed by a 6x-His tag
photoconvertible fluorescent protein mMaple3-V157I in pRSetA plasmid, photoconvertible by primed conversion mechanism, bacterial overexpression, sequence is codon optimised for E. coli
pDonor for ShoHELIX containing 14bp of spacing between the I-AniI site and LE/RE using ShCAST flanking sequence and encoding a kanamycin resistance gene as cargo
Plasmid encoding for the bacterial expression of a bispecific coding for the anti-HER2 affibody ZHER2:342 fused to the mutated form of BirA enzyme, BirA*
Plasmid encoding the BxbI phage integrase. It can be used to remove the antibiotic resistance cassette integrated with pCIFR. CmR, easily curable via sucrose counterselection.
LIC vector for improved multigene expression of MS2 Phage-Like Particles in bacteria with packaged control sequence. His6 CP tag and Twin-strep MP tag for AC purification.
LIC vector for improved polycistronic expression of MS2 Phage-Like Particles in bacteria with packaged control sequence. His6 CP tag for IMAC purification.
LIC vector for improved polycistronic expression of MS2 Phage-Like Particles in bacteria with packaged control sequence. Strep-tag II CP tag for Strep-Tactin AC purification.
LIC vector for improved multigene expression of MS2 Phage-Like Particles in bacteria with packaged control sequence. His6 CP tag for IMAC purification.