LOCUS FX157132 1102 bp mRNA linear TSA 23-MAY-2012 DEFINITION TSA: Schima mertensiana mRNA, contig: Sm_rep_c11555. ACCESSION FX157132 VERSION FX157132.1 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 1102) 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Isolation and characterization of EST-SSR markers in Schima mertensiana using next-generation pyrosequencing JOURNAL Unpublished (2011) COMMENT Several-year-old seedlings of Schima mertensiana naturally grown in Bonin Island were used for RNA extraction.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..1102 /db_xref="taxon:678541" /dev_stage="several year old seedlings" /mol_type="mRNA" /note="contig: Sm_rep_c11555" /organism="Schima mertensiana" /tissue_type="mixture of inner bark, current year twigs and terminal buds" BASE COUNT 318 a 233 c 232 g 314 t ORIGIN 1 gcaattgctg aacacaatgt caccgtcgtt ggaatggatg ggagctacct caagcccata 61 tccacaccaa atgtggcact atccccaggg caaacaatta acgtcctatt cacggcaaat 121 caacctcctg atcactacta catggctgct agacagtttg ttaccgtggg ttcggctgat 181 gttgataatg ctaccacagc agttatagaa tacagtggca actatactcc ttcgtcttcc 241 cctgtcttcc catccaacct tcctttccac acaaacattg aggctgcaaa atgaattttt 301 gtcccgctta aggagtttag ccagtgaaga acaccctgta tttgtgccac aaaaaaatta 361 gtcacccaat gtttatagtt gtttctgaga aagagattgt ttgtccaaat agtacttgcg 421 agacggcgga tggaaatagg attaagttca gccatgaaca acattacttt tctgatgcct 481 acaacagata tattgcttgc ctactacagc aatatcagtg gggtttatga taccgatttt 541 ccggattttc caaactggtt ttataacttc acgagtgatg atttgccaaa taatactgtg 601 attccaacca ttggaaccaa ggtgagggtg tttgattaca atgaaacagt ggagatagtg 661 tttcagggaa ccgatgttct ggctggagcr cagaatcacc ccatgcattt gcatgggcat 721 agcttttatg tggttggwtc aggagttggg aatttcraca atgagacaga cccgaaatca 781 tataatttgg ttgatccacc tgaattgaat acaatwcgag ttcctaagaa tggatgggty 841 actgtcagat tcacgacaaa taatccaggt gtatggctgt ggcactgtca tttgctccga 901 catctcacct ggggtatgaa aactgtcttt atagtgaaga atggtgggac tccagagacg 961 agcctccttg atccccctcc ttccatgcct tcttgcaaag ataaatttgt caattatatc 1021 gaggagttca aagattcaga agtcgtgcaa ccaattcgga taagtggaaa tataaacaaa 1081 ttaagtgtaa tttgatttag cc //