LOCUS FX175685 792 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Pandanus boninensis mRNA, contig: Pb_c13935. ACCESSION FX175685 VERSION FX175685.1 DBLINK BioProject:PRJDA67377 Sequence Read Archive:DRR001102 BioSample:SAMD00011606 KEYWORDS TSA; Transcriptome Shotgun Assembly. SOURCE Pandanus boninensis ORGANISM Pandanus boninensis Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Pandanales; Pandanaceae; Pandanus. REFERENCE 1 (bases 1 to 792) AUTHORS Yoshimaru,H. and Suzuki,S. TITLE Direct Submission JOURNAL Submitted (30-MAY-2011) to the DDBJ/EMBL/GenBank databases. Contact:Hiroshi Yoshimaru Forestry and Forest Products Research Institute, Department of Forest Genetics; 1 Matsunosato, Tsukuba, Ibaraki 305-8687, Japan REFERENCE 2 AUTHORS Setsuko,S., Uchiyama,K., Sugai,K. and Yoshimaru,H. TITLE Development of EST-SSR markers from cDNA library of Pandanus boninensis Warburg (Pandanaceae) JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Pandanus boninensis naturally grown in Bonin Island were used for RNA extraction. About 3 g of inner bark was cut and frozen in liquid nitrogen, ground using mortar and pestle. Total RNA was extracted by the CTAB method (Le Provost et al., 2007), and contaminated DNA was removed by SV total RNA isolation system (Promega, Madison, WI). The cDNA library construction and next generation sequencing by Roche 454 GS FLX sequencer with titanium chemistry were carried out by the Hokkaido System Science Co., Ltd. (Hokkaido, Japan). To remove polyA and adapter sequences from the cDNA sequences, the Program cross_match (http://bozeman.mbt.washington.edu/phrap.docs/phrap.html) and TIGR SeqClean sequence trimming pipeline (http://compbio.dfci.harvard.edu/tgi/software/) was used prior to further analyses. We used a EST sequence assembler MIRA (Chevreux et al., 2004) to run de novo assemblies. FEATURES Location/Qualifiers source 1..792 /db_xref="taxon:1035881" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Pb_c13935" /organism="Pandanus boninensis" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 352 a 108 c 135 g 192 t ORIGIN 1 ctagaactag ggaaaggaat acgagggata tgaatcaagt tattaaaact aaagatcata 61 gaattttagt gaaagacatg gacatcaaag agagataaaa atgttatttt aaaaggttat 121 taaataagaa ttcgactata aaagtagatt tagaagatac ctatatgatg catgcaacct 181 aagcataaaa ttgtttctac tcttgtaatg caacttttat tagattcaag taagggcgga 241 ttttagatta ataaaaccta cactagaaag caataaagga attaaagagg ggaagatgga 301 aagaaatcac ctgaaaagta agcaattttt ttttaacaaa cacaatcaaa gacaatctct 361 atcttctacc tggctgcaac aagaagcaaa caaaawaaag agactagtta gtactaatga 421 atgyaaaacg agagcaaaga taatcaaacc caaaacttgc ttccccasgc aacggcrcca 481 aaaattaata cgagtttrca aggtgtcgtt aagcaatgca aatgtatcaa attagtttcg 541 acttgcaaca aaagtaaaaa cgtagtacaa tagcaagcac aggtcgaatt ccacggggaa 601 gaaaggcaaa ggtttaaaaa ctttgatcaa actaatcaaa tgctaaaaac aaagaataat 661 gaatttacta tttactaaaa taaagcttat aaataaatct taaataaata agaaggatca 721 aacaagatga caatgcaaat ctaaaaataa agtgaaagag aaagatggga tgggcatgta 781 cctttagaac tt //