LOCUS FX126359 980 bp mRNA linear TSA 17-MAY-2014
DEFINITION TSA: Calophyllum inophyllum mRNA, contig: Ci_c10263.
ACCESSION FX126359
VERSION FX126359.1
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 980)
AUTHORS Yoshimaru,H. and Suzuki,S.
TITLE Direct Submission
JOURNAL Submitted (26-MAY-2011)
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 (1), 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..980
/db_xref="taxon:158927"
/dev_stage="several year old seedlings"
/mol_type="mRNA"
/note="contig: Ci_c10263"
/organism="Calophyllum inophyllum"
/tissue_type="mixture of inner bark, current year twigs
and terminal buds"
BASE COUNT 243 a 227 c 309 g 201 t
ORIGIN
1 cccaacagga ggtcgaggcc ggaggcggag gaggtatggc ctgaacgtag tgcgtaggag
61 aaaatcggtg gtgccggctg gggttaagcc agtccgggac agcatgaccg gaatgaccta
121 ccccgccaac atggcagagg ccgaggggcg ttgctttcag atgcaatgtc ggcctctgct
181 ttcagatgca atgtccctat gaccaagact gcttaaccca taatgatgca gttgccttca
241 aactagtgaa ggcggctcat tatccggggg atcaacgggt ctaccagtcg ctgacaggtg
301 gcctgcccac catgatggag gtggcaatga ccgacttgat gagggtaagc actactttgc
361 tttgctgccg ctttctttgt tttttttaaa cctaatttgg gttctcggac tggctcactt
421 ggtgcagggg atggttgcct tgagcgtgtc ctaccaaacc ctgttggagc aaccttctga
481 ggtcgtgttt gcttagtagc gggcgtgaaa cagcagagaa gtattctgag ctagtagact
541 cggatgaaag aaacaagggt agccaagaga gaagaagctc ggcgagaagc tacgaccgag
601 cttgagaaag ctcagcaaga agctaaagcc gagctgaacc agacactcga gtgcgagcga
661 caacagctcg cagaacgtgt ggctgaagcg aaatgggagg ctgtggacga gtacaaagag
721 gtcggcccat ttccgccgcc ttgtggagct gatgcagagg ccatgcagcg tgctgggaaa
781 gtagcttgcg agagaaaaat tggccatcga ctaccctgac atcgcccaga gatatcaaaa
841 ggaatggccc gacatggtgc cattgaagtc taaggatctc gaggggtatg actctgaggt
901 gtcgttgccg ccttacctcg ccgacctatg ggagtagtga ggaatctgag gaggcgggca
961 gtgacagcga tggcaaccag
//