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Fig. 4 | BMC Genomics

Fig. 4

From: Revealing the novel complexity of plant long non-coding RNA by strand-specific and whole transcriptome sequencing for evolutionarily representative plant species

Fig. 4

The conservation of lncRNAs in plant. A The PhastCons scores of coding genes (including CDS, 5’UTR, 3’UTR, and Intron), lncRNAs (lincRNA and lncNAT) and intergenic sequences. B, C Conserved lincRNAs and coding genes in each species. LincRNAs were aligned to genome of another species using blastn, while amino acid sequences of coding genes were aligned to another species’ amino acid sequences using blastp. The numbers of legend were the ratio of transcripts with homologous sequences in the genome of other species. The labels were abbreviations of each species. D The cumulative frequency of PhastCons scores in coding genes and lncRNAs. The lincRNA-patch meant a window (12 bp) sliding from the first base to the last one, and then the highest window score was selected to stand for the score of the lincRNA. E Highly conserved IPS motifs in all plant species in this study except algae. The marked sequences with orange and turquoise were regions combining to miRNA. F The phylogenetic relationships of terrestrial plant was constructed according to the nucleotide sequences of IPS using MEGA7 (https://www.megasoftware.net/)

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BMC Genomics

ISSN: 1471-2164

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