LOCUS FX157365 569 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Schima mertensiana mRNA, contig: Sm_c11788. ACCESSION FX157365 VERSION FX157365.1 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 569) 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Isolation and characterization of EST-SSR markers in Schima mertensiana using next-generation pyrosequencing JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Schima mertensiana naturally grown in Bonin Island were used for RNA extraction.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..569 /db_xref="taxon:678541" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Sm_c11788" /organism="Schima mertensiana" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 172 a 137 c 112 g 148 t ORIGIN 1 tttcaaaact gcttgatggc cacctcagtt cattgactat aagaaagaaa aaaatgaagt 61 acaacattag catgacgcca ctagaagctg taagtgctac tgctgcaaac aaggttcctt 121 cgccgcactg ttcaattgag acgctctaat atgtcttttc actagaaacc caatcatcgt 181 ctacattgtc aggctctctg ggttctcaac aatctttgag aaggtctgga ggaaggcagc 241 caagtcagca ccatagatga ttcgatgatc agctgttaca ttcaccagca tttttacttt 301 ttacgtctga agaaatccat ctgcatcagc aacaacagta ggctttgtat gctccgacag 361 ccatgatagc cccctcggcc cggaggaaga atagcatcaa acctatccac tccaaacatg 421 cccaaattag gaaagagtga aagtaccctg aattgtactc atggggctga agttgcttgg 481 cccgggcttt ttctaccaac tccttccatt tttgagataa cagataaaga tccaacttat 541 cagcatctgg aagaacaggg gttatcaac //