LOCUS FX156645 970 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Schima mertensiana mRNA, contig: Sm_c11068. ACCESSION FX156645 VERSION FX156645.1 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 970) 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Isolation and characterization of EST-SSR markers in Schima mertensiana using next-generation pyrosequencing JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Schima mertensiana naturally grown in Bonin Island were used for RNA extraction.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..970 /db_xref="taxon:678541" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Sm_c11068" /organism="Schima mertensiana" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 274 a 189 c 222 g 284 t ORIGIN 1 catggggtag tttgagaagg ctactatttg cgagtggatg tataaggtaa gcccacctca 61 catatccatg atttatgagc tcgatgttat tgtcttcatg ttccttcagg ttatctgttc 121 aggtggtgat tgttcccatg cctgtgctgc catctctatt atgcatgtaa tatgtggtaa 181 aagcatttag ttattctgtg aaattatttt agcaacatag ttttatggat gggaaagact 241 gctgttacta taattagtct gtaaatatgt tctgataaat ttgcatagat ttttttccca 301 ttcgtgcagg cattcctcgt tatgcctctc cattcacgcc aatggttcgg ccagcatttc 361 ctctacgtcc accaggtgca attggcatgg ttccaccact gtcgcggccc cctgttcccg 421 gaattcgtgg tccaattctc ccccctattg ttaggccagc gctctttcca agtgttacac 481 caacagagaa accgcaaact acagtttatg ttggcaagat tgcatcaaca gttgaaagtg 541 atttcattct ctctctcctt caactttgtg gacctgtcaa gaattggaaa cgtgctcaag 601 atccgacaaa cggcactcct aaaggatttg gattttgtga atttgagtct gctgaagggg 661 ttcttcgtgc attaaggctg ctgagtaaat taaatgtcga tgggcaagag ttggtgataa 721 atgttacgca agcaacaaga gagtatcttg agcgttatgt tgaaaagaaa gctgaaaact 781 caaagaaagt caaagagact gaaactgaag gggatgagaa agagmaagaa ggtgcaccaa 841 gtactgagaa gagtgaacct ccaaaaaccc tctgtcgatg actcaaagaa ggatgacaag 901 gattcaggga atgaagaaaa taatgacact tctaactttg gcattgtgac tgatgatgac 961 agggaagcgt //