| Small Cajal body specific RNA 16 | |
|---|---|
 | |
| Identifiers | |
| Symbol | SCARNA16 |
| Rfam | RF00424 |
| Other data | |
| RNA type | Gene; snRNA; snoRNA; scaRNA; |
| PDB structures | PDBe |
Small Cajal body specific RNA 16 (also known as SCARNA16 or ACA47) is a small nucleolar RNA found in Cajal bodies and believed to be involved in the pseudouridylation (isomerisation of uridine to pseudouridine) of U1 spliceosomal RNA.
scaRNAs are a specific class of small nucleolar RNAs that localise to the Cajal bodies and guide the modification of RNA polymerase II transcribed spliceosomal RNAs U1, U2, U4, U5 and U12.[1]
ACA47 belongs to the H/ACA box class of guide RNAs as it has the predicted hairpin-hinge-hairpin-tail structure, the conserved H/ACA-box motifs and is found associated with GAR1.[2] ACA47 is predicted to guide the pseudouridylation of residue U5 of the U1 spliceosomal snRNA[3].
This box H/ACA scaRNA shows a regular architecture. Still, with a length between 150 nt in T. gutatta and 188 nt in C. familiaris, it lies outside the typical size range for box H/ACA snoRNA. It was experimentally detected in human[2] and chicken (GGN10)[4]. It was further reported to be present in tetrapods and teleosts. In Tetrapoda, it derives from a non-coding host gene designated C17orf86 located between MGAT5B and SEC14L1. In teleosts, on the other hand, SCARNA16 resides in an intron of the protein coding gene PDHA1.
References
edit- ^ Darzacq, Xavier; Jády, Beáta E.; Verheggen, Céline; Kiss, Arnold M.; Bertrand, Edouard; Kiss, Tamás (2002). "Cajal body-specific small nuclear RNAs: A novel class of 2'-O-methylation and pseudouridylation guide RNAs". The EMBO Journal. 21 (11): 2746–2756. doi:10.1093/emboj/21.11.2746. PMC 126017. PMID 12032087.
- ^ a b Kiss, Arnold M.; Jády, Beáta E.; Bertrand, Edouard; Kiss, Tamás (2004). "Human Box H/ACA Pseudouridylation Guide RNA Machinery". Molecular and Cellular Biology. 24 (13): 5797–5807. doi:10.1128/MCB.24.13.5797-5807.2004. PMC 480876. PMID 15199136.
- ^ Lestrade, Laurent; Weber, Michel J. (2006). "snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs". Nucleic Acids Research. 34 (Supplement 1: Database Issue): D158–D162. CiteSeerX 10.1.1.105.7552. doi:10.1093/nar/gkj002. PMC 1347365. PMID 16381836.
- ^ Zhang, Y.; Wang, J.; Huang, S.; Zhu, X.; Liu, J.; Yang, N.; Song, D.; Wu, R.; Deng, W.; Skogerbø, G.; Wang, X. -J.; Chen, R.; Zhu, D. (2009). "Systematic identification and characterization of chicken (Gallus gallus) ncRNAs". Nucleic Acids Research. 37 (19): 6562–6574. doi:10.1093/nar/gkp704. PMC 2770669. PMID 19720738.