LOCUS FX159512 690 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Schima mertensiana mRNA, contig: Sm_rep_c13935. ACCESSION FX159512 VERSION FX159512.1 DBLINK BioProject:PRJDA67331 Sequence Read Archive:DRR001101 BioSample:SAMD00003860 KEYWORDS TSA; Transcriptome Shotgun Assembly. SOURCE Schima mertensiana ORGANISM Schima mertensiana Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Theaceae; Schima. REFERENCE 1 (bases 1 to 690) 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 Isolation and characterization of EST-SSR markers in Schima mertensiana using next-generation pyrosequencing JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Schima mertensiana naturally grown in Bonin Island were used for RNA extraction. About 3 g of inner bark and current year twigs were 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..690 /db_xref="taxon:678541" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Sm_rep_c13935" /organism="Schima mertensiana" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 205 a 152 c 165 g 168 t ORIGIN 1 ctcaaatgca attcatctga gggttagggt ttcgtaagga actacgaaga tgtcttcgtc 61 gaagaagatc acgctgaaga gctccgacgg agaggcgttc gaggtggagg aggtggtggc 121 gctggaatct cagacgatca agcacatgat cgaagacgat tgcgccgaca gcgtcatacc 181 tctccccaac gtcaccagca agatcctcgc caaggtcatc gagtattgca agaagcacgt 241 cgagaccacc aagaacgaag atcgatctgc tgaggacgaa ctcaagactt gggacgccga 301 gttcgtcaaa gtcgaccagc caactctatt tgatctcatt ctcgctgcta actatctgaa 361 catcaagaac ctgttggacc ttacgtgcca ggcagttgca gacacgataa agggaaagac 421 tccagaggaa atccgaaaga ccttcaacat caagaatgac ttcacccctg aagaagagga 481 ggaggtccgt agggagaacc aatgggcatt tgagtaagaa attgtatggt aaaaaagcaa 541 actctgcaaa caaacatgaa tctttaaata ttgcagctgg tgtaggtact attagggtta 601 tgtattccgt acttttatct tcatgacttt atggttctgt ctatttaact actctcttca 661 gtcttaatga tagcctttct tttgaattgt //