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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Fragment containing a kanamycin resistance cassette
Fragment containing pMB1 origin of replication and an I-SceI recognition sequence
Fragment containing a lacZ⍺ expression cassette flanked by BsaI sites
Fragment containing an I-SceI recognition sequence
Lentiviral vector for constitutive expression of the tetracycline transactivator tTA and of the blue fluorescent protein tagBFP, separated by an internal ribosome entry site (SFFV promoter)
Gateway destination clone of AAK1 (human) tagged with N-terminal Flag for generating protein-protein networks using fusion tag affinity-based proteomics
Nourseothricin resistant; expresses sspB under the control of a promoter containing PtetO and constitutively expressses single-chain TetR10 (tsc10); integrates into mycobacteriophage att-Tweety site
Kanamycin resistant; expresses luxAB-DAS+4 under the control of a promoter containing PtetO-4C5G; constitutively expresses reverse TetR (tetR38); integrates into the mycobacteriophage att-L5 site
Expression plasmid for human codon-opt. increased fidelity SpCas9-HF1-plus (w/o U6-sgRNA). Cleaves both 20nt and 5'-extended 21nt spacer containing sgRNAs with close to the same fidelity as SpCas9-HF1
Replaces Addgene plasmid 118460. Yeast tagging vector to create a gene fusion with yeast optimized mYPET with CaUra3 selection; Contains the linker region at the 5’ end of the FP