Databases available for BLAST search


Nucleotide Sequence Databases


EST_contigs : 24,713 sequences
Assembled EST sequences

EST_clones : 93,692 sequences
Individual EST sequences from the five cDNA libraries.

  1: JMFF library: 34,200 sequences
JMSF stands for Japanese Morning glory Flower Full-length. The cDNAs were synthesized by CAP trapper method from mRNA isolated from flowers and flower buds. Both 5' and 3' ends were sequenced, and the names of the 3' end sequence were prefixed with "r". The numbers of 5' (JMFF) and 3' (rJMFF) sequences are 17,254 and 16,946, respectively.

  2: JMFS library: 36,341 sequence
JMFS stands for Japanese Morning glory Flower Size-selected. The cDNA fragments with over 3 kb long were fractionated. Total RNA was extracted from flowers and flower buds, and mRNA was purified. Both 5' and 3' ends were sequenced, and the names of the 3' end sequence were prefixed with "r". The numbers of 5' (JMFS) and 3' (rJMFS) sequences are 18,627 and 17,714, respectively.

  3: JMFN library: 9,012 sequences
JMFN stands for Japanese Morning glory Flower Normalized. The cDNA fragments with 0.5 - 3 kb long were collected and normalized. Total RNA was extracted from flowers and flower buds.

  4: JMSF library: 13,068 sequences
JMSF stands for Japanese Morning glory Seedling Full-length. The cDNAs were synthesized by CAP trapper method from mRNA isolated from aerial part of seedlings at 8 days after seeding.

  5: JMCP library: 1,071 sequences
JMCP stands for Japanese Morning glory seed Coat PCR. It was made from mRNA extracted from seed coats using a SMART cDNA Library Construction Kit (Clontech).

asagao_genome : 3,416 sequences
The latest scaffold sequences of the draft genome. The sequences of scaffold0001-scaffold3416 are available from accession numbers BDFN01000001-BDFN01003416.

predicted_CDS : 44,916 sequences
The coding sequences deduced from 44,916 predicted_transcripts.

predicted_transcripts : 44,916 sequences
The predicted transcripts derived from 42,783 gene models on the draft genome.

asagao_genome_old : 3,512 sequences
The scaffold sequences of the draft genome.

predicted_CDS_old : 43,397 sequences
The coding sequences deduced from 43,397 predicted_transcripts.

predicted_transcripts_old : 43,397 sequences
The predicted transcripts derived from 43,008 gene models on the draft genome.

BAC_clones : 46,848 sequences
End sequences of 23,424 BAC clones in JMHiBa library. JMHiBa stands for Japanese Morning glory HindIII BAC. Genomic DNA from TKS was digested with HindIII, and was cloned into pIndigoBAC536.

RNA-seq assembled : 163,898 sequences
RNA-seq from six tissues including leaf, flower, stem, root, embryo, and seed coat was assembled using Trinity. N50 and average lengths are 1,337 bp and 567 bp, respectively.

DEG seed coat : 271 sequences
Differentially Expressed Genes in seed coat.

DEG embryo : 218 sequences
Differentially Expressed Genes in embryo.

DEG root : 414 sequences
Differentially Expressed Genes in root.

DEG stem : 108 sequences
Differentially Expressed Genes in stem.

DEG leaf : 284 sequences
Differentially Expressed Genes in leaf.

DEG flower : 488 sequences
Differentially Expressed Genes in flower.