Skip to main content
Fig. 2 | Genome Biology

Fig. 2

From: Intronic tRNAs of mitochondrial origin regulate constitutive and alternative splicing

Fig. 2

Computational analyses of MTLs within the human and mouse genome. a Overview of the annotated MTLs in humans and mice. Venn diagram illustrating the overlap between our annotated (own) MTLs and those that are already known (published), as well as which of them are located within previously annotated numtDNAs (synteny). Although the synteny information indicates which mtRNAs have been integrated into the nuclear genome, not all of them can be annotated due to their strong degradation (53 in human and 15 in mouse). In total, we identified 731 and 92 MTLs within recognizable numtDNA in humans and mice, respectively. Of these, 355 are newly annotated in humans and 44 in the mouse. b The genes DCLK1, CENPP, and AKAP6 in H. sapiens and the gene Myo3a in M. musculus were analyzed by tRNAscan. Additionally, the 5′- and 3′-distances from nimtRNA clusters to the intron termini were determined. White letters in black boxes represent the single letter amino acid code of the respective nimtRNA (Q = nimtRNAGln, I = nimtRNAIle, Y = nimtRNATyr, C = nimtRNACys, N = nimtRNAAsn, A = nimtRNAla, W = nimtRNATrp, D = nimtRNAAsp, S = nimtRNASer). c Evolutionary conserved MTLs. Outliers of MTLs are subject to a stronger stabilizing selection after their insertion into the nuclear genome relative to numtDNAs and are shown above the red line. Outliers were measured by Cook’s distance. The majority (25 of 36) of the more extreme outliers are nimtRNAs. d Preservation of the secondary structure of nimtRNAs. As an example, multiple sequence alignments along with the consensus sequence-structure RNA motif are shown for all nimtRNAs of type nimtRNAAsp. The sequences of nimtRNAAsp exhibit base changes compared to their primordial mtRNAAsp, but the secondary structure is maintained. The different colors provide information concerning the number of distinct base pairs occurring whereas the shading indicates how many sequences or structures in the alignment do not form a particular base pair

Back to article page