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. 2019 Jul 3;10:647. doi: 10.3389/fgene.2019.00647

Figure 1.

Figure 1

Genomic distribution of poly(A) sites in X. tropicalis. (A) Distribution of different types of genes. Protein-coding gene accounts for more than 97% of annotated genes. (B) Distribution of APA sites in different locations. “3′ end ss” refers to the 3′ UTR and the extended region of 3′ UTR. “5′ end ss” refers to the 5′ UTR and the extended region of 5′ UTR. “Ex_3′ UTR” refers to the extended region of 3′ UTR. “Ex_5′ UTR” refers to the extended region of 5′ UTR. (C) Distribution of APA frequencies in different genomic regions. The left y-axis denotes the percentage of respective genes with the poly(A) site(s) in the specific region. The right y-axis denotes the APA ratio, which is the ratio between the number of APA sites in the specific region and the number of genes these APA sites are located in. Proximal sites are defined as poly(A) sites located in non-3′ UTR regions, while distal sites are those in 3′ UTR or extended 3′ UTR regions. “non-APA gene” refers to no APA event in the gene. “rare APA gene” refers to one APA site per gene. “moderate APA gene” refers to two to four APA sites per gene. “abundant APA gene” refers to more than four APA sites per gene. “APA ratio” refers to the average number of APA per gene (APA site number/APA gene number). (D) The relationship among the APA frequency, the gene length, the number of introns, etc. “Freq” represents the frequency of APA sites in the gene; “Length” represents the length of a gene; “Inum” represents the number of introns; “5′ UTR,” “CDS,” and “Intron” represent the frequency of APA sites in the respective genomic regions, respectively. “proximal” represents the frequency of APA sites in CDS, intron, or 5′ UTR regions. “distal” represents the frequency of APA sites in 3′ UTR.