database of genomic structural variation
Reference image symbolizes represented entity.
Pictogram that serves as representation of a DNAComponent, indicating the function of the DNAComponent in the enclosing design.
Symbol to represent a regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the basal transcription machinery.
Symbol to represent a region of DNA sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends.
Symbol to represent a regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon.
Symbol to represent a contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon.
Symbol to represent a region in mRNA where ribosome assembles.
Symbol to represent the sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription.
Symbol to represent a transcriptional cis regulatory region that when located between a CM and a gene's promoter prevents the CRM from modulating that genes expression.
Symbol to represent a region of DNA sequence that codes for a ribonuclease cleavage site on the RNA transcript.
Symbol to represent a RNA secondary structure that affects the stability of an RNA molecule.
Symbol to represent a polypeptide_region that codes for a protease cleavage site.
Symbol to represent a polypeptide region that proves structure in a protein that affects the stability of the protein.
Symbol to represent the origin of replication; starting site for duplication of a nucleic acid molecule to give two identical copies.
Symbol to represent a non-covalent primer binding site for initiation of replication, transcription, or reverse transcription.
Symbol to represent a nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site.
restriction enzyme recognition site symbol
Symbol to represent a restriction enzyme recognition site that, when cleaved, results in no overhangs.
Symbol to represent a restriction enzyme recognition site that, when cleaved, results in 5-prime overhangs.
Symbol to represent a restriction enzyme recognition site that, when cleaved, results in 3-prime overhangs.
Symbol to represent a terminal region of DNA sequence where the end of the region is not blunt ended and the exposed single strand terminates at the 3' end.
Symbol to represent a region of DNA sequence where developer information is encoded.
Symbol to represent a region of a DNA sequence not covered by other SBOL Visual symbols.
A DNA component represents a segment of DNA that serves to abstract the DNA sequence as an individual object, which can then be manipulated, combined, and reused in engineering new biological systems.
Collection A collection is an organizational container, a group of DnaComponents. For example, a set of restriction enzyme recognition sites, such as the components commonly used for BBF RFC 10 BioBricks could be grouped. A Collection might contain DNA components used in a specific project, lab, or custom grouping specified by the user.
DNA Sequence The DNA sequence is a contiguous sequence of nucleotides. The sequence is a fundamental information object for synthetic biology and is needed to reuse components, replicate synthetic biology work, and to assemble new synthetic biological systems. Therefore, both experimental work and theoretical sequence composition research depend heavily on the exact base pair sequence specification associated with DnaComponents.
Sequence Annotation The sequence annotation is the position and strand orientation of a notable sub-sequence found within the DnaComponent being described. Annotations provide the link which describes the DNA sequence of a component in terms of other components, subComponents. When a DNA component is abstract, SequenceAnnotations specify relative positions between subComponents.
Zero or more values of type URI (IETF RFC 2396) referencing the Sequence Ontology (see Appendix for commonly used terms). These provide a defined terminology of types of DnaComponents. This vocabulary may be extended, (use "Request a Term" http://sequenceontology.org).
A regulatory element of an operon to which activators or repressors bind thereby effecting translation of genes in that operon.
Region in mRNA where ribosome assembles.
The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription.
A regulatory_region composed of the TSS(s) and binding sites for TF_complexes of the basal transcription machinery.
This term is mapped to MGED. Do not obsolete without consulting MGED ontology. The region on a DNA molecule involved in RNA polymerase binding to initiate transcription.
The origin of replication; starting site for duplication of a nucleic acid molecule to give two identical copies.
A contiguous sequence which begins with, and includes, a start codon and ends with, and includes, a stop codon.
A region in the 5' UTR that pairs with the 16S rRNA during formation of the preinitiation complex.
A transcriptional cis regulatory region that when located between a CM and a gene's promoter prevents the CRM from modulating that genes expression.
A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5' UTR and CDS sequence.
The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site.
restriction endonuclease recognition site
blunt end restriction enzyme cleavage site
sticky end restriction enzyme cleavage site
A terminal region of DNA sequence where the end of the region is not blunt ended.