Bioinformatics Analysis on Regulating Axillary Branch Gene of Cucumber (Cucumis sativus L.)

The regulating axillary branch gene was cloned and named as CsCCD7. Using a series bioinformatic computer softwares, database and online programes, CsCCD7 nucleotide sequence and CsCCD7 amino acid sequence were analyzed and CsCCD7 function was predicted. The results showed that CsCCD7 cDNA full length sequence was 2 136 bp, and included a 1 665 bp ORF which encoded a 554 AA protein; there were 32 kinds of cis-acting regulating element in 2 136 bp cDNA sequence; CsCCD7 was an unstable protein (the unstable coefficient: 40.77), including many phosphorylation sites related with CsCCD7 function; CsCCD7 had no transmembrane domain, and its subcellular localization was in chloroplast. CsCCD7 secondary structure contained four conformations including α-helix, β-sheet, β-turn and random coil. CsCCD7 protein had no signal peptide, so was non-secretory protein and hydrophilicity protein (grand average of hydropathicity: −0.401). Both CsCCD7 secondary and tertiary structure prediction results showed that it was classified as carotenoid oxygenase family. Phylogenetic tree drew by Geneious showed that CsCCD7 was more closely related to AtCCD7 than any other Arabidopsis CCD protein.