DDBJ Annotated/Assembled Sequences
Many genome projects submitting a lot of HTG or WGS entries can often provide the information to assemble a series of their entries and reconstruct a genome structure. An accession number would be assigned for such contig tiling path, and call it “CON entry”, which is classified into CON division.
CON entries have CONTIG lines that indicate accession numbers of citation sequences (piece entries) and their tiling order to construct the contig. The nucleotide sequence of CON entry is not shown on DDBJ flat file.
We can NOT directly accept the submission of CON entry. At you have to submit all piece entries to construct the contig, then a CON entry will be constructed.
AGP File is required to submit CON entries.
You can submit CON data to DDBJ via Mass Submission System (MSS).
Sample flat file
LOCUS BA001000 5631 bp DNA linear CON 06-DEC-2008 DEFINITION Homo sapiens DNA, chromosome 7, scaffold_ASE1. ACCESSION BA001000 BZZZ01000000 VERSION BA001000.1 DBLINK BioProject:PRJDA12345 KEYWORDS WGS. SOURCE Homo sapiens (human) ORGANISM Homo sapiens Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo. REFERENCE 1 (bases 1 to 5631) AUTHORS Mishima,H. and Shizuoka,T. TITLE Direct Submission JOURNAL Submitted (01-APR-2003) to the DDBJ/EMBL/GenBank databases. Contact:Hanako Mishima National Institute of Genetics, DNA Data Bank of Japan; Yata 1111, Mishima, Shizuoka 411-8540, Japan REFERENCE 2 AUTHORS Mishima,H., Shizuoka,T. and Fuji,I. TITLE Human WGS scaffold CON JOURNAL Unpublished (2003) COMMENT Whole genome shotgun sequencing project. Please visit our web site URL:http://www.ddbj.nig.ac.jp/ FEATURES Location/Qualifiers source 1..5631 /db_xref="taxon:9606" /mol_type="genomic DNA" /organism="Homo sapiens" /submitter_seqid="scaffold_ASE1" assembly_gap 1346..2845 /estimated_length=1500 /gap_type="within scaffold" /linkage_evidence="paired-ends" assembly_gap 4302..4401 /estimated_length=unknown /gap_type="within scaffold" /linkage_evidence="align trnscpt" CONTIG join(BZZZ01123456.1:1..1345,gap(1500),BZZZ01123457.1:1..1456, gap(unk100),complement(BZZZ01123458.1:1..1230)) //