Rho utilisation site

Rho utilisation site, also known by the acronym rut, is a sequence of RNA in bacteria upstream of the terminator region which serves as a binding site for the protein known as rho factor. This sequence is necessary in rho-dependent termination of DNA transcription in bacteria. The common feature of the rut site is an abundance of cytosine and paucity of guanine residues, although these sequences vary widely in different genes with little homology.[1]

A few algorithms have been developed to predict such sites.[2][3]

References

Lewin's genes X. Lewin, Benjamin., Krebs, Jocelyn E., Kilpatrick, Stephen T., Goldstein, Elliott S., Lewin, Benjamin. (10th ed.). Sudbury, Mass.: Jones and Bartlett. 2011. ISBN 9780763766320. OCLC 456641931.CS1 maint: others (link)
Di Salvo, Marco; Puccio, Simone; Peano, Clelia; Lacour, Stephan; Alifano, Pietro (7 March 2019). "RhoTermPredict: an algorithm for predicting Rho-dependent transcription terminators based on Escherichia coli, Bacillus subtilis and Salmonella enterica databases". BMC Bioinformatics. 20 (1). doi:10.1186/s12859-019-2704-x.
Nadiras, Cédric; Eveno, Eric; Schwartz, Annie; Figueroa-Bossi, Nara; Boudvillain, Marc (19 September 2018). "A multivariate prediction model for Rho-dependent termination of transcription". Nucleic Acids Research. 46 (16): 8245–8260. doi:10.1093/nar/gky563. PMC 6144790. PMID 29931073.

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[1] Lewin's genes X. Lewin, Benjamin., Krebs, Jocelyn E., Kilpatrick, Stephen T., Goldstein, Elliott S., Lewin, Benjamin. (10th ed.). Sudbury, Mass.: Jones and Bartlett. 2011. ISBN 9780763766320. OCLC 456641931.CS1 maint: others (link)

[2] Di Salvo, Marco; Puccio, Simone; Peano, Clelia; Lacour, Stephan; Alifano, Pietro (7 March 2019). "RhoTermPredict: an algorithm for predicting Rho-dependent transcription terminators based on Escherichia coli, Bacillus subtilis and Salmonella enterica databases". BMC Bioinformatics. 20 (1). doi:10.1186/s12859-019-2704-x.

[3] Nadiras, Cédric; Eveno, Eric; Schwartz, Annie; Figueroa-Bossi, Nara; Boudvillain, Marc (19 September 2018). "A multivariate prediction model for Rho-dependent termination of transcription". Nucleic Acids Research. 46 (16): 8245–8260. doi:10.1093/nar/gky563. PMC 6144790. PMID 29931073.