title: Animal snoRNAs and scaRNAs with exceptional structures.
abstract: The overwhelming majority of small nucleolar RNAs (snoRNAs) fall into two clearly deﬁned classes characterized by distinctive secondary structures and sequence motifs. A small group of diverse ncRNAs, however, shares the hallmarks of one or both classes of snoRNAs but diﬀers substantially from the norm in some respects. Here, we compile the available information on these exceptional cases, conduct a thorough homology search throughout the available metazoan genomes, provide improved and expanded alignments, and investigate the evolutionary histories of these ncRNA families as well as their mutual relationships.
authors.affiliation: RNA Bioinformatik Gruppe, Institut f¨ur Pharmazeutische Chemie, Philipps Universit¨at Marburg, Marburg, Germany.
authors.forename: Manja
authors.initials: M
authors.lastname: Marz
authors.forename: Andreas R
authors.initials: AR
authors.lastname: Gruber
authors.forename: Christian
authors.initials: C
authors.lastname: Höner Zu Siederdissen
authors.forename: Fabian
authors.initials: F
authors.lastname: Amman
authors.forename: Stefan
authors.initials: S
authors.lastname: Badelt
authors.forename: Sebastian
authors.initials: S
authors.lastname: Bartschat
authors.forename: Stephan H
authors.initials: SH
authors.lastname: Bernhart
authors.forename: Wolfgang
authors.initials: W
authors.lastname: Beyer
authors.forename: Stephanie
authors.initials: S
authors.lastname: Kehr
authors.forename: Ronny
authors.initials: R
authors.lastname: Lorenz
authors.forename: Andrea
authors.initials: A
authors.lastname: Tanzer
authors.forename: Dilmurat
authors.initials: D
authors.lastname: Yusuf
authors.forename: Hakim
authors.initials: H
authors.lastname: Tafer
authors.forename: Ivo L
authors.initials: IL
authors.lastname: Hofacker
authors.forename: Peter F
authors.initials: PF
authors.lastname: Stadler
mesh_terms: D000818:Animals; D001483:Base Sequence; D020541:Coiled Bodies / Q000378:metabolism*; D016678:Genome / Q000235:genetics; D006801:Humans; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D020537:RNA, Small Nucleolar / Q000737:chemistry* / Q000145:classification / Q000235:genetics*; D016415:Sequence Alignment / Q000379:methods; D012689:Sequence Homology, Nucleic Acid
chemical_list: D020537:RNA, Small Nucleolar