TraJ-II RNA motif

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Consensus secondary structure of traJ-II RNAs
Symbol traJ-II
Rfam RF01760
Other data
RNA type Cis-regulatory element
Domain(s) Proteobacteria

The traJ-II RNA motif is a conserved RNA structure discovered in bacteria by using bioinformatics.[1] traJ-II RNAs appear to be in the 5' untranslated regions of protein-coding genes called traJ, which functions in the process of bacterial conjugation. A previously identified motif known as TraJ 5' UTR is also found upstream of traJ genes functions as the target of FinP antisense RNAs, so it is possible that traJ-II RNAs play a similar role as targets of an antisense RNA. However, some sequence features within the traJ-II RNA motif suggest that the biological RNA might be transcribed from the reverse-complement strand. Thus is it unclear whether traJ-II function as cis-regulatory elements. traJ-II RNAs are found in a variety of proteobacteria.


  1. ^ Weinberg Z, Wang JX, Bogue J, et al. (March 2010). "Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea and their metagenomes". Genome Biol. 11 (3): R31. PMC 2864571Freely accessible. PMID 20230605. doi:10.1186/gb-2010-11-3-r31. 

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