You can add the feature tracks by downloading the GFF3 feature track files using the same menu. gff file in the latest ApE.Īlternatively, you can export a genomic region (from the genome viewer) as a FASTA formatted file (using the menu on the upper left). UNCHECK 'Include track configuration data'. Dump selected features using version 3 Across currently visible region. You can now export genomic regions from Wormbase directly: In the upper right drop-down menu button, select 'Download Track Data'. Finds translationally silent restriction sitesĬlick here to make a voluntary donation in support of ApE.Aligns two DNA sequences (or any combination of sequence and ABI trace), with the alignment hyperlinked to the original sequence.Finds potential primers matching user criteria (length, Tm, %GC, self/other complementarity).Translates sequences with optional DNA alignment.Graphic maps that show primer binding sites and all interesting sequence features.Sequence to be annotated and visualized in multiple ways quickly and efficiently.

Quick searching and highlighting of all available primers that you (or others) have that hybridize to a sequence.

Uses custom feature definition libraries, which allow:.

Most analysis windows are hyperlinked to their corresponding sequences, including:.

Imports DNA Strider format files (simple enzyme, site lists) available from REBASE.Allows users to define new enzymes by name and recognition site.Has user defined enzyme grouping to distiguish eg.Selects sites that cut more often in one sequence than another (for snip-SNP detection or diagnostic digests).Selects sites matching multiple criteria (union/intersection- cut frequency, site type) in all open windows.Sequences in ABI traces can be aligned directly to a reference sequence, with the alignment hyperlinked back to te trace.Draws pre-defined and user-defined DNA ladders.Copy and save graphics as Windows metafiles (MS Windows only).Saves graphics as encapsulated postscript or scalable vector graphics.Connects graphic and text features with hyperlink double click.Creates graphic restriction maps- linear or circular with features indicated.Text map shows DNA sequence, translation, and features as text-based graphics.

Directly BLASTs selected sequence at NCBI or wormbase.Highlights and draws graphic maps using feature annotations from genbank and embl files.Saves files as DNA Strider-compatible or Genbank file format.Reads DNA Strider, Fasta, Genbank and EMBL files.Shows translation, Tm, %GC, ORF of selected DNA in real-time.

Highlights text using pre-defined and custom feature libraries.

Accurately reflects Dam/Dcm blocking of enzyme sites.

Highlights restriction sites in the editing window.

Runs in Windows (XP, Vista, 7, 8, and 10) and Mac (OS X v10.11 and above).

Ape dna editor