The GSS division of DDBJ/ENA/GenBank is similar to the
EST division, with the exception that most of the
sequences are genomic in origin, rather than cDNA (mRNA, RNA
It should be noted that two classes (exon trapped products and gene trapped products) may be derived via a cDNA intermediate. Care should be taken when analyzing sequences from either of these classes, as a splicing event could have occurred and the sequence represented in the record may be interrupted when compared to genomic sequence.
The GSS division contains (but is not limited to) the following types of data:
- random “single pass read” genome survey sequences; e.g. RAPD, RFLP, AFLP and so on.
- cosmid/BAC/HTCYAC end sequences
- exon trap, gene trap
- transposon-tagged sequences
You can submit GSS data to DDBJ through Mass Submission System (MSS)
- Notes on the GSS submission
- Prior to your submission, remove regions of cloning vectors from your sequences.
- Clone Id is required for clone qualifer.
Sample flat file
Aspects of GSS
- Though there are exceptions, no feature information is provided except source.
- LOCUS line provides the division name, “GSS”.
- “GSS” is indicated in KEYWORDS line.
LOCUS GA000000 423 bp DNA linear GSS 15-OCT-2008 DEFINITION Arabidopsis thaliana DNA, BAC clone: CIC5D1, left end, chromosome 1 between mi303 and mi259. ACCESSION GA000000 VERSION GA000000.1 KEYWORDS GSS. SOURCE Arabidopsis thaliana (thale cress) ORGANISM Arabidopsis thaliana Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core eudicotyledons; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis. REFERENCE 1 (bases 1 to 423) AUTHORS Mishima,H., Yamada,T. and Liu,G.Q. TITLE Direct Submission JOURNAL Submitted (30-SEP-2008) 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Japan REFERENCE 2 AUTHORS Mishima,H., Yamada,T., Park,C.S. and Liu,G.Q. TITLE Arabidopsis thaliana DNA JOURNAL Unpublished (2008) FEATURES Location/Qualifiers source 1..423 /chromosome="1" /clone="CIC5D1" /clone_lib="AT01 BAC" /db_xref="taxon:3702" /ecotype="columbia" /map="between mi303 and mi259" /mol_type="genomic DNA" /organism="Arabidopsis thaliana" BASE COUNT 105 a 98 c 112 g 108 t ORIGIN 1 attaatataa gctaaatatg tttttcaata tatattgata atagaatatc aacaatttgg : -- The rest of nucleotide sequence is omitted -- : //