LOCUS FX157242 746 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Schima mertensiana mRNA, contig: Sm_c11665. ACCESSION FX157242 VERSION FX157242.1 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 746) 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Isolation and characterization of EST-SSR markers in Schima mertensiana using next-generation pyrosequencing JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Schima mertensiana naturally grown in Bonin Island were used for RNA extraction.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..746 /db_xref="taxon:678541" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Sm_c11665" /organism="Schima mertensiana" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 208 a 143 c 166 g 223 t ORIGIN 1 tttttatggt tcaggtatca gaaaactacc ttgaaatccc atctcttttt gggctggtaa 61 agggacttgt tgtgtacctg atcaatctac atatggacct tctatttcag caatccgtgc 121 cgccttagat ttaaactcca ctgttagcaa cgaccctcca actctaacca atttcaactc 181 cactgttagc aacaacccta ctccagacag taagaacaag accggtttga ttgttgggat 241 tgttgttcct gttgcagttg caagttttct gtctgtattt gtgctatggt gtttcgtcca 301 aagaagaaaa agggcacaca agaatgmgga tgaagagctt ctagggatgg atgctagacc 361 ttwcactttc agttatgctg aactcagggc tgcaacagaa gattttaatc ctrmaaacaa 421 actcggagag ggaggctttg gactggttta taagggaaca ctcaatgatg kgagggtggt 481 tgctgttaaa caactttctg tggcatccca ccaaggaaag agtcaatttg tggcagagat 541 tgctacaatt atctgctgtg caamaccgaa atcttgtgaa attgtatgga tgctgtattg 601 agggagataa acaactgctt gtttacgagt atcttgaaaa caagaagtct tgatcaagca 661 ctatttggaa agaaaacttt gcatcttgac tggcccactc gttttgatat atgcttggga 721 gtagcaaggg gcttatctta tcttca //