GC-AssemblyDesc
Defined in file genome_collection.asn
C++ class: CGC_AssemblyDesc
GC-AssemblyDesc ::= SEQUENCE {
-- project ID for this genome
-- this is the ID for this asssembly and may reflect the submitter/source
projects SET OF GC-Project OPTIONAL,
-- Names of the assembly
name VisibleString OPTIONAL,
submitter-name VisibleString OPTIONAL,
display-name VisibleString OPTIONAL,
long-name UTF8String OPTIONAL,
filesafe-name VisibleString OPTIONAL,
wgs-acc-prefix VisibleString OPTIONAL,
wgs-acc-number INTEGER OPTIONAL,
-- release type: RefSeq / GenBank.
release-type INTEGER {
genbank (1),
refseq(2)
} OPTIONAL,
-- release status (numeric values have gaps for possible additional states
release-status INTEGER {
new(0),
gpipe(5),
public(10),
suppressed(15),
hup(100),
withdrawn(105)
} OPTIONAL,
-- in alt-loci units - contain alignment of this sequence to the primary
-- unit
annot SET OF Seq-annot OPTIONAL,
-- Synonyms: Other releases of same assembly
synonyms SET OF GC-DbTagAlias OPTIONAL,
-- Submitter release date
submitter-date Date OPTIONAL,
-- Various attributes assigned at this level:
-- biosrc, comments, publications...
--
-- Special user-objects:
-- Internal identifiers (GCOL-1178): type str ="gencoll-misc"
-- data : 2 user fields :
-- label str "asm-name" str
-- label str "asm-id" int
-- ftp-sites: type str ="ftp-sites"
-- data : one or 2 fields, depending if both GB and RS have ftp-sites
-- label str : "genbank" or "refseq" str : path to ftp-site
-- diffs between GB / RS assemblies: type str "diff-from-synonym",
-- data label id str
descr Seq-descr OPTIONAL ,
-- flag: is this assembly partial?
-- **NOTE: not set = not known!!
partial BOOLEAN OPTIONAL,
-- level of coverage for this assembly
-- **NOTE: not set = not known!!
coverage REAL OPTIONAL,
-- release level: Most of releases are major
release-level INTEGER {
major(0),
patch(1),
minor(2),
-- stopper
other(255)
} DEFAULT major,
-- organization which submitted this assembly.
-- populated from BioProject
submitter-organization UTF8String OPTIONAL
}