Additional file 3.
The majority of chicken ncRNAs cloned and presented as novel RNAs by Zhang at al.  are homologs of ncRNAs described previously. Alignments of chicken ncRNAs with the homologs in human or sometimes other vertebrates are shown. GGN sequences are from Zhang et al. . Vault RNA sequence corresponds to the GenBank AF045143 sequence. Other sequences are from snoRNABase  and Additional file 4 in this paper. C, D/D', H, ACA, and CAB boxes are underlined; antisense elements are boxed; sequence numbering corresponds to human rRNAs in snoRNABase. In C/D snoRNAs, the nucleotide complementary to the modification site is indicated by the red arrowhead. For the vault RNAs, the secondary structures predicted by mfold [42,43] are shown. The order of ncRNAs is as in Table 2. The SNORD102B transcript has a longer antisense element, and thus can guide the modification of the rRNA nucleotide adjacent to that modified by SNORD102A (marked with black and red arrowheads, respectively) .
Format: PDF Size: 73KB Download file
This file can be viewed with: Adobe Acrobat Reader
Makarova and Kramerov BMC Genomics 2011 12:543 doi:10.1186/1471-2164-12-543