Results: 4

1.
Figure 4

Figure 4. Schematic of RUF20 in S. cerevisiae, S. bayanus, and A. gossypii.. From: Non-Coding RNA Prediction and Verification in Saccharomyces cerevisiae.

Open boxes represent the flanking genes, SEC4 and VTC2. The transcripts for which complete RACE data are available are shown as black boxes, and the candidates for which there is incomplete RACE data are shown as blank or black-to-gray gradient boxes. The coordinates for the bounds of the genes are noted in S. cerevisiae. The curved vertical lines signify that the entire length of the flanking genes is not included in the figure. (A) RUF20 in S. cerevisiae. (B) RUF20 in S. bayanus. (C) RUF20 in A. gossypii.

Laura A. Kavanaugh, et al. PLoS Genet. 2009 January;5(1):e1000321.
2.
Figure 1

Figure 1. Z-score vs. position.. From: Non-Coding RNA Prediction and Verification in Saccharomyces cerevisiae.

The tRNA (K00228.1), length 82 nt, is embedded in mRNA sequence (AF452886, 22–270 nt) at position 170–246 (represented as a black box). The Z-score for the sliding window (step size = 1) is plotted vs. position. The Z-score value is placed in the center of the window. Three different window lengths (black-60 nt; blue-82 nt; red-95 nt) are plotted. The blue plot is a scan using the exact tRNA length (82 nt) as the window size. This tRNA was detected using window lengths as short as 60 nt and as long as 95 nt.

Laura A. Kavanaugh, et al. PLoS Genet. 2009 January;5(1):e1000321.
3.
Figure 2

Figure 2. Z-score vs. position.. From: Non-Coding RNA Prediction and Verification in Saccharomyces cerevisiae.

The tRNA (AF076356.1), length 69 nt, is embedded in mRNA sequence (NM_001003966, 1–366 nt) at position 117–185 (represented as a black box). The Z-score for the sliding window (step size = 1) is plotted vs. position. The Z-score value is placed in the center of the window. Three different window lengths (black-60 nt; blue-69 nt; red-79 nt) are plotted. The blue plot is a scan using the exact tRNA length (69 nt) as the window size. This tRNA was not detected using window length of 60 nt and detected only by a single point using a window length of 79 nt.

Laura A. Kavanaugh, et al. PLoS Genet. 2009 January;5(1):e1000321.
4.
Figure 3

Figure 3. Schematic of ncRNA candidates.. From: Non-Coding RNA Prediction and Verification in Saccharomyces cerevisiae.

The genes annotated in SGD are represented as open boxes containing the name of the gene. Position numbers above the genes on chromosome VI are taken from SGD. Dotted lines extending from the boxes represent UTR regions and numbers above the lines indicate the measured length of the UTR. The curved vertical lines signify that the entire length of the flanking genes is not included in the figure. The ncRNAs for which complete RACE data are available are shown as black boxes, and the candidates for which there is incomplete RACE data are shown as gray or black-to-gray gradient boxes. (A) RUF20 between SEC4 and VTC2 (B) RUF21 between TUB2 and RPO41 (C) RUF22 between ROG3 and PES4 (D) RUF23 between RPL2A and YFR032C.

Laura A. Kavanaugh, et al. PLoS Genet. 2009 January;5(1):e1000321.

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