GFFTable {SMRUCC.genomics.Annotation.Assembly.NCBI.GenBank.TabularFormat.GFF}

.NET clr documentation

GFFTable

Description

GFF (General Feature Format) specifications document

Declare

            
# namespace SMRUCC.genomics.Annotation.Assembly.NCBI.GenBank.TabularFormat.GFF
export class GFFTable {
   # date    (##date <date>)
   # 
   # The date the file was made, Or perhaps that the prediction programs were run. We suggest to use astronomical format 1997-11-08 for 8th November 1997, first because these sort properly, And second to avoid any US/European bias.
   date: string;
   # DNA
   # 
   # (##DNA <seqname> ##acggctcggattggcgctggatgatagatcagacgac ##... ##End-DNA)
   # 
   # To give a DNA sequence. Several people have pointed out that it may be convenient to include the sequence in the file. It should Not become mandatory to do so, And in our experience this has been very little used. Often the seqname will be a well-known identifier, And the sequence can easily be retrieved from a database, Or an accompanying file.
   DNA: string;
   # 基因组上面的特性位点
   features: Feature[];
   # gff-version   (##gff-version 2)
   # 
   # GFF version - In Case it Is a real success And we want To change it. The current Default version Is 2, so If this line Is Not present version 2 Is assumed.
   GffVersion: integer;
   # 生成这个文件的应用程序
   processor: string;
   # Protein
   # 
   # (##Protein <seqname>
   # 
   # ##MVLSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSF ##... ##End-Protein)
   # 
   # Similar to DNA. Creates an implicit ##Type Protein <seqname> directive.
   Protein: string;
   # RNA
   # 
   # (##RNA <seqname> ##acggcucggauuggcgcuggaugauagaucagacgac ##... ##End-RNA)
   # 
   # Similar to DNA. Creates an implicit ##Type RNA <seqname> directive.
   RNA: string;
   # sequence-region  (##sequence-region <seqname> <start> <end>)
   # 
   # To indicate that this file only contains entries for the specified subregion of a sequence.
   SeqRegion: SeqRegion[];
   # Genome size
   Size: integer;
   Sources: string;
   species: string;
   # source-version   (##source-version <source> <version text>)
   # 
   # So that people can record what version Of a program Or package was used To make the data In this file. I suggest the version Is text without whitespace. That allows things Like 1.3, 4a etc. There should be at most one source-version line per source.
   SrcVersion: string;
   # type   (##Type <type> [<seqname>])
   # 
   # The type Of host sequence described by the features. Standard types are 'DNA', 'Protein' and 'RNA'. The optional <seqname> allows multiple ##Type definitions describing multiple GFF sets in one file, each of which have a distinct type. If the name is not provided, then all the features in the file are of the given type. Thus, with this meta-comment, a single file could contain DNA, RNA and Protein features, for example, representing a single genomic locus or 'gene', alongside type-specific features of its transcribed mRNA and translated protein sequences. If no ##Type meta-comment is provided for a given GFF file, then the type is assumed to be DNA.
   type: string;
}

        

.NET clr type reference tree

1. use by property member features: Feature
2. use by property member SeqRegion: SeqRegion

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