Figure 1.

Schematic diagram of the pipeline used in the identification of long non-coding RNAs (lncRNAs) and novel mRNAs. This pipeline took the reads that mapped to the pig reference genome as input data (top). The four criteria required for the identification of lncRNAs are indicated in red. LncRNAs are defined as reliably expressed, long, multi-exonic, and noncoding transcripts. Transcripts that predicted with positive coding potential by any of the four tools (CNCI, CPC, Pfam-scan and PhyloCSF) were considered as novel mRNAs.