LOCUS FX128087 1015 bp mRNA linear TSA 17-MAY-2014
DEFINITION TSA: Calophyllum inophyllum mRNA, contig: Ci_c11991.
ACCESSION FX128087
VERSION FX128087.1
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 1015)
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..1015
/db_xref="taxon:158927"
/dev_stage="several year old seedlings"
/mol_type="mRNA"
/note="contig: Ci_c11991"
/organism="Calophyllum inophyllum"
/tissue_type="mixture of inner bark, current year twigs
and terminal buds"
BASE COUNT 197 a 276 c 314 g 228 t
ORIGIN
1 aatttgctcc tctccaaaca cgcctccata aaaacaattc cgctctctat ccaccccccc
61 acaccataat gccggcgaca gatttctcgt cggcatcctt cggtcgttcg atcctcagcc
121 tccgtcgcga caccatggag tcctccccta ccgctggacc ccaacaccac cactcttcct
181 caccgacttg cccctttccc ggccacgagg gtgatttggc gtccttccag aggcttataa
241 ttgaccggtt cgtcgaacta tccgcggctg ccaaacccga aagcccggtc ctttctttgg
301 actggatccg atccctcctc gacgccttca tctgctgcca ggagaagttc caggccattt
361 tgataaagac ccggtctctt tcccagaaac cgccactgga caggctcgtc caggacttct
421 tcgaccggag cgtgaaggcg ttggatattt gcaacgctat ccgggacagg atcgagcaga
481 tccgggaatg gaggaagcta ctagagattg tcctcgttgc tttagataat aatagcggta
541 ctggtgatag caatgatagg gggaggagtt agggttcttg ggggaagggc agttccggag
601 ggcgaagaaa gcgctgatag aactctcaat ttcgatgttg gatgacaagg attcgaattc
661 ttctgtcaag gcggggttgg cgaatcggaa ccgctcgttc gggcgccaca atgctgggtc
721 ctctggggcc ggagctgggt caaggctggg gcattttcgg tcgttgtcgt ggagcgtgtc
781 gcagtcgtcg tcagcggcga ggcagctgca ggcgattggg aataatctga cgccgcctag
841 ggcgagtgag gtggcagcga cgggaggggt ggcgggggcg gtttacgcca tgggatcggt
901 gctgttattg gttatgtggg cgcttgtagc agccatacca gaccggggga tgcgggggct
961 gaacgtgcac ttctcggtgc cgaagggggt cccctgggct gggggcattg atggg
//