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SNAPGENE FEATURE DATABASE DOWNLOAD

If a feature is interrupted by insertion of another sequence, its coordinates can be defined as two disjoint regions using the Split Feature option (#4 in Figure 1, see example in Figure 2).įigure 3.

Feature Coordinates (#3 in Figure 1) are captured automatically by SnapGene when a new feature is defined by selecting a sequence region in the SnapGene sequence or map or when a feature from the SnapGene library is detected using Detect Common Features….

Since it is not captured, no annotation needs to be provided other than the Label. This split feature should not be captured (i.e., do not fill in Capture = yes in the /Note field). (Uncheck them in the feature list in the SnapGene file.) For the purpose of displaying in the map, a third feature should be created with the coordinates of the 5’ and 3’ ends shown as two disjoint regions (see Split Feature option below). However, they should not be shown on the map. The 5’-end and 3’-end features should be captured (i.e., fill in Capture = yes in the /Note field) and saved in the SnapGene library.

If the feature is an ORF, “N/A” should be entered in the /product field. For example, if the merA gene is interrupted, two features- merA 5’-end and merA 3’-end-should be created.

Annotation of split features: If a feature is interrupted by insertion of another sequence, its 5’ and 3’ ends should be annotated separately.

For a given feature, Name may or may not be the same as Label.

Name (#2 in Figure 1) is a sub-field within the /note field for some feature types. Label (#1 in Figure 1) refers to the text entered in the Feature text box in the SnapGene feature editing interface.Multiple items within any annotation field should be separated by “ ||”.Therefore, for each feature which we do want to extract, we include a field in /Note Capture = yes. In some cases, the Genbank files have additional features that we are not interested in capturing for TnCentral.These features will all be documented in the enhanced Genbank files according to the guidelines below. 10.3 Repeat Regions and Recombination Sitesįor TnCentral, we are interested in curating the following features: Protein-coding genes (e.g., transposase genes, accessory genes, passenger genes), Mobile Elements (e.g., transposons, insertion sequences, integrons), Repeat Elements (e.g., IRL, IRR), and Recombination Sites (e.g, Res and attC).10 Field Structure for /note for Different Feature Types.9.5 Annotation of Recombination Sites in Mobile Element Sequence Variants.9.2 Feature Type (selected from SnapGene Pull-Down Menu).8.5 Annotation of Repeat Elements in Mobile Element Sequence Variants.8.2 Feature Type (selected from SnapGene Pull-Down Menu).

7 Annotation of CDS in Mobile Element Sequence Variants.6.6 Passenger Genes: Subclass Hypothetical.6.4 Passenger Genes: Subclass Antibiotic Resistance (ABR) Genes.6.3 Passenger Genes: Subclass Toxin and Antitoxin Genes.6 Further Information About Annotation of Some Specific Types of CDS.5.3 Feature Type (selected from SnapGene Pull-Down Menu).4 Annotation of Internal Mobile Elements.3.3 Mobile Element Type and Name (/mobile_element_type field).3.2.1 Feature Type (selected from SnapGene Pull-Down Menu).

SNAPGENE FEATURE DATABASE DOWNLOAD

2.1 Download our Snapgene curated Library.