Dictyostelium class II RNA
| Class II RNA | |
|---|---|
 Class II RNA conserved secondary structure | |
| Identifiers | |
| Other data | |
| RNA type | Cis-reg |
| Domain(s) | Dictyostelium discoideum |
| PDB structures | PDBe |
The class II RNA is a non-coding RNA. This family was identified using shotgun sequencing of full-length cDNA libraries of small RNAs (sRNA) from the social amoeba Dictyostelium discoideum.[1] The RNAs are 59–60 nucleotides in length. A Northern blot analysis showed that this ncRNA was expressed in all stages of development and that, like Dictyostelium class I RNA, class II is strongly localised in the cytoplasm.[1] Dictyostelium class I and II share a consensus sequence (5'-CCUUACAGCAA-3') which is found in an 'open' area of the secondary structure of both molecules. The function of this RNA is unknown.[1]
See also
[edit]References
[edit]- ^ a b c Aspegren A, Hinas A, Larsson P, Larsson A, Söderbom F (2004). "Novel non-coding RNAs in Dictyostelium discoideum and their expression during development". Nucleic Acids Res. 32 (15): 4646–4656. doi:10.1093/nar/gkh804. PMC 516072. PMID 15333696.
Further reading
[edit]- Larsson P, Hinas A, Ardell DH, Kirsebom LA, Virtanen A, Söderbom F (June 2008). "De novo search for non-coding RNA genes in the AT-rich genome of Dictyostelium discoideum: performance of Markov-dependent genome feature scoring". Genome Res. 18 (6): 888–899. doi:10.1101/gr.069104.107. PMC 2413156. PMID 18347326.
- Hinas A, Söderbom F (March 2007). "Treasure hunt in an amoeba: non-coding RNAs in Dictyostelium discoideum". Curr. Genet. 51 (3): 141–159. doi:10.1007/s00294-006-0112-z. PMID 17171561.
- Mosig A, Sameith K, Stadler P (February 2006). "Fragrep: an efficient search tool for fragmented patterns in genomic sequences". Genomics Proteomics Bioinformatics. 4 (1): 56–60. doi:10.1016/S1672-0229(06)60017-X. PMC 5054030. PMID 16689703.
External links
[edit]- Sequence Ontology page for Class II RNA Archived 2011-07-21 at the Wayback Machine
- Page for D. discoideum sRNA DdR35 at Rfam