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Atypical RNAs in the coelacanth transcriptome
Author(s) -
Nitsche Anne,
Doose Gero,
Tafer Hakim,
Robinson Mark,
Saha Nil Ratan,
Gerdol Marco,
Canapa Adriana,
Hoffmann Steve,
Amemiya Chris T.,
Stadler Peter F.
Publication year - 2014
Publication title -
journal of experimental zoology part b: molecular and developmental evolution
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.823
H-Index - 63
eISSN - 1552-5015
pISSN - 1552-5007
DOI - 10.1002/jez.b.22542
Subject(s) - transcriptome , biology , rna , gene , alternative splicing , genetics , gene isoform , computational biology , gene expression
ABSTRACT Circular and apparently trans‐spliced RNAs have recently been reported as abundant types of transcripts in mammalian transcriptome data. Both types of non‐colinear RNAs are also abundant in RNA‐seq of different tissue from both the African and the Indonesian coelacanth. We observe more than 8,000 lincRNAs with normal gene structure and several thousands of circularized and trans‐spliced products, showing that such atypical RNAs form a substantial contribution to the transcriptome. Surprisingly, the majority of the circularizing and trans‐connecting splice junctions are unique to atypical forms, that is, are not used in normal isoforms. J. Exp. Zool. (Mol. Dev. Evol.) 322B: 342–351, 2014 . © 2013 Wiley Periodicals, Inc.