LOCUS FX127651 1011 bp mRNA linear TSA 17-MAY-2014
DEFINITION TSA: Calophyllum inophyllum mRNA, contig: Ci_c11555.
ACCESSION FX127651
VERSION FX127651.1
DBLINK BioProject:PRJDA67327
Sequence Read Archive:DRR001052
BioSample:SAMD00016598
KEYWORDS TSA; Transcriptome Shotgun Assembly.
SOURCE Calophyllum inophyllum
ORGANISM Calophyllum inophyllum
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae;
Pentapetalae; rosids; fabids; Malpighiales; Calophyllaceae;
Calophylleae; Calophyllum.
REFERENCE 1 (bases 1 to 1011)
AUTHORS Yoshimaru,H. and Suzuki,S.
TITLE Direct Submission
JOURNAL Submitted (26-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., Hanaoka,S. and Yoshimaru,H.
TITLE Microsatellite markers derived from Calophyllum inophyllum
(Clusiaceae) expressed sequence tags
JOURNAL Am. J. Bot. 99, e28-e32 (2012)
REMARK Publication Status: Online-Only
DOI:10.3732/ajb.1100299
COMMENT Several-year-old seedlings naturally grown in Bonin Island were
used for RNA extraction. About 3 g of inner bark, current year
twigs and terminal buds 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..1011
/db_xref="taxon:158927"
/dev_stage="several year old seedlings"
/mol_type="mRNA"
/note="contig: Ci_c11555"
/organism="Calophyllum inophyllum"
/tissue_type="mixture of inner bark, current year twigs
and terminal buds"
BASE COUNT 284 a 219 c 252 g 256 t
ORIGIN
1 aacaacaaca tcccggtggg aacttccacc gggggggggc actgccgcca ccgccaccgc
61 agatgatgcg gcaggagtcg gtggcttcga ctgcgttcaa cccgcaggat taccaccagc
121 agcaacagca tcacccttcc gccccagggc gccccatcac ggtccttatg atgcatatgg
181 tgatggtttt ggtgggagag aatgagaaag cctacccaaa ggagagcagt tgattataca
241 agcacaattg ttcgttacat tcagaccagg atgtggcagc gagattccaa ggacaggaca
301 gcattacagc caaccccagc tgctgctgtt gatttcttgc cacctgttgc ttattctgat
361 aacccatcaa ccagctttgc tgcaaagttt gttcatacgt ctctaaacaa aaaccggtgt
421 tcaattaatc aagttctgtg gactcctaat gggagacgtc taatcacagg ctctcaaagt
481 ggggagttca ctctttggaa tggccaatca tttaattttg aaatgattct tcaggcccat
541 gatcaagcaa tcaggtctat gatatggagc cacaatgata attggatggt gtctggtgat
601 gatgggggtg caataaagta ttggcagagc aacatgaata atgtcaaggc aaataaatcc
661 gcccataaag aatctgttcg tggtttgagc ttctgtagaa cagatttgaa attctgctcc
721 tgctcggatg acactactgt taaagtttgg gactttgcta ggtgtcagga agagcgttca
781 ttaactggcc atggttggga tgtgaaaagt gttgactggc accctacaaa atctcttcta
841 gtttcaggtg ggaaagacaa ccttgtaaaa ctctgggatg ctaaaagtgg aagggagctg
901 tgctcatttc atggacacaa aaatacagtg ctatgtgtca agtggaacca aaatggtaac
961 tgggtgctaa ctgcttctaa ggatcagata atcaagctct atgatataag g
//