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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...pAdEasy-1 Adenoviral backbone plasmid that lacks E1 and E3. pAdEasy-2 Adenoviral backbone plasmid that lacks...transgene of interest and both ITRs. Adenoviral backbone plasmid (e.g. pAdEasy) — containing the adenoviral...containing pAdEasy. pAdEasy is a ~33 kb adenoviral backbone plasmid containing the adenoviral genes necessary...production. The shuttle plasmid and the adenoviral backbone plasmid have matching left and right homology ...recombination of the transgene into the adenoviral backbone plasmid. One can also co-transform standard BJ5183...transgene has been inserted into the adenoviral backbone plasmid, and that other patterns of recombination...equivalent across multiple viruses. The adenoviral backbone plasmid pAdEasy-1 (Addgene #16400) is suitable...
...as from a chromosome to a plasmid or vector DNA backbone. These tools are essential to the field of recombinant...of a DNA fragment with a plasmid or vector DNA backbone generates a recombinant DNA molecule, which can...unique and not located elsewhere in the plasmid backbone. In expression plasmids, the MCS is often located...entry vectors and TOPO cloning vectors. Empty Backbones , Cloning Kits Expression Plasmids Used for gene...promoter is used to initiate transcription. Empty Backbones Gene Knock-down Plasmids Used for reducing the...Sequencing Primers Choosing Your Perfect Plasmid Backbone Plasmids 101 series on the Addgene blog Addgene...
...compatible restriction enzymes that cut your insert or backbone at only the desired location for your cloning ... your gene of interest (insert) into a plasmid backbone. Created with BioRender.com. Gateway Recombination...disadvantage of TOPO cloning is that very few plasmid backbones are available TOPO-ready, and it is not feasible...overhangs can be efficiently ligated into any plasmid backbone. A drawback of this system is that Gibson assembly...Cloning (MoClo) Guide Choosing Your Perfect Plasmid Backbone Genome Eengineering Guide Addgene Protocols Plasmid...
...terminators, 4 nonfunctional "dummy" parts, 34 backbones, and 6 destination vectors for use in E. coli ...including CRISPR/Cas nucleases, base editors, gRNA backbones, and promoters for genome editing in monocots ...expression Christopher Dupont 95 plasmids including backbones, fluorescent proteins, protein tags, and signal...
...been created in AAV backbones for in vivo experiments and in a retroviral backbone for delivery to cells...disrupt Cas9’s interactions with DNA phosphate backbone HypaCas9 — increase Cas9 proofreading and discrimination...Schnitzbauer, J., Zhang, W., Li, G., Park, J., Blackburn, E. H., Weissman, J. S., Qi, L. S., & Huang, B...