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Table 3 Riboswitches detected in the transcriptome of P. riograndensis SBR5 and their transcriptional organization

From: Detailed transcriptome analysis of the plant growth promoting Paenibacillus riograndensis SBR5 by using RNA-seq technology

No.

Accession

Riboswitch and its transcriptional organization

Related function

Locus tag

1

RF00059

(TPP)-thiC

Phosphomethylpyrimidine synthase

P.riograndensis_final_150

2

RF00059

(TPP)-P.riograndensis_final_504-P.riograndensis_final_503-P.riograndensis_final_502

Conserved hypothetical protein- Hypothetical protein- Biding protein dependent transport system inner membrane component

P.riograndensis_final_504-P.riograndensis_final_503-P.riograndensis_final_502

3

RF00162

(SAM)-metA- P.riograndensis_final_2059

Homoserine O-succinyltransferase-Cystathionine gamma-lyase

P.riograndensis_final_2058-P.riograndensis_final_2059

4

RF00230

(T-box)-serA

D-3-phosphoglycerate dehydrogenase

P.riograndensis_final_4453

5

RF00230

(T-box)-valS

Valine tRNA ligase

P.riograndensis_final_5318

6

RF00379

(ydaO-yuaA)-P.riograndensis_final_93

Cell wall-associated hydrolase (invasion- associated protein)

P.riograndensis_final_93

7

RF00504

P.riograndensis_final_6104-gcvPA-gcvPB

Glycine utilization

P.riograndensis_final_6104-P.riograndensis_final_6105-P.riograndensis_final_6106

8

RF00558

(L20 leader)-infC- P.riograndensis_final_1528-P.riograndensis_final_1529

Translation initiation factor IF-3- Conserved hypothetical protein- Ribosomal protein L20

P.riograndensis_final_1527-P.riograndensis_final_1528-P.riograndensis_final_1529

9

RF00559

(L21 leader)-rplU- P.riograndensis_final_5299-P.riograndensis_final_5300

50S ribosomal protein L21- Conserved hypothetical protein- 50S ribosomal protein L27

P.riograndensis_final_5298-P.riograndensis_final_5299-P.riograndensis_final_5300

10

RF01749

(pan)-panB- panC- P.riograndensis_final_4379

3-Methyl-2-oxobutanoatehydroxymethyltransferase-Pantothenate synthetase- Aspartate 1-decarboxylase alpha

P.riograndensis_final_4381-P.riograndensis_final_4380-P.riograndensis_final_4379

11

RF01750

(pfl)-P.riograndensis_final_6217

Hypothetical protein

P.riograndensis_final_6217