RegulonDB RegulonDB 10.9: Operon Form
   

greA operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: greA
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit       
Name: greA
Gene(s): greA   Genome Browser M3D Gene expression COLOMBOS
Note(s): Potrykus et al. (2009) identified four promoters for the greA gene; however, based on two of them (called here the P3 and P4 promoters) they lack a clear consensus, they show no activity in vitro, and finally, lacZ fusion yields barely measurable activities. The P3 and P4 bands which were identified by primer extension could be generated during posttranscriptional processes Potrykus K,2010
greA gene expression is subject to self-repression. The autoregulatory effect is indirect, or additional factors are necessary Potrykus K,2010
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Rhodius VA., et al., 2005
Promoter
Name: greAp2
+1: 3328853
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 138
Sequence: ccctataaagtaaacgatgacccttcgggaacttcagggtaaaatgactatcaaaatgtgAattgtagctgacctgggact
                             -35                   -10      +1                   
Note(s): This promoter presents two transcription initiations, with the following absolute positions: 3326875 and 3326874 Rhodius VA,2005
Two-thirds of greA transcripts terminate within the leader region, and the remaining third comprises greA mRNA. This is because the greA leader region has an unusual intrinsic terminator that produces two clusters of small RNA chains called GraL, which originate from two overlapping upstream greAp1 and greAp2 promoters Potrykus K,2010 The array of short transcripts could be associated with paused or arrested transcripts Potrykus K,2010
Evidence: [AIPP]
[ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Potrykus K., et al., 2010
[1] Rhodius VA., et al., 2005
Terminator(s)
Type: rho-independent
Sequence: ccgggaccagAAGCAAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCtacaattcac
Reference(s): [3] Potrykus K., et al., 2010


Transcription unit       
Name: greA
Gene(s): greA   Genome Browser M3D Gene expression COLOMBOS
Note(s): Potrykus et al. (2009) identified four promoters for the greA gene; however, based on two of them (called here the P3 and P4 promoters) they lack a clear consensus, they show no activity in vitro, and finally, lacZ fusion yields barely measurable activities. The P3 and P4 bands which were identified by primer extension could be generated during posttranscriptional processes Potrykus K,2010
greA gene expression is subject to self-repression. The autoregulatory effect is indirect, or additional factors are necessary Potrykus K,2010
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Rhodius VA., et al., 2005
Promoter
Name: greAp1
+1: 3328864
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 149
Sequence: acggcgcaacgccctataaagtaaacgatgacccttcgggaacttcagggtaaaatgactAtcaaaatgtgaattgtagct
                            -35                    -10      +1                   
Note(s): Two-thirds of greA transcripts terminate within the leader region, and the remaining third comprises greA mRNA. This is because the greA leader region has an unusual intrinsic terminator that produces two clusters of small RNA chains called GraL, which originate from two overlapping upstream greAp1 and greAp2 promoters Potrykus K,2010 The array of short transcripts could be associated with paused or arrested transcripts Potrykus K,2010
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Potrykus K., et al., 2010
Terminator(s)
Type: rho-independent
Sequence: ccgggaccagAAGCAAAAAAATACCGACCCGGGTACAAGTCCCAGGTCAGCtacaattcac
Reference(s): [3] Potrykus K., et al., 2010


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -18.7 3328809 3328846 gtgaattgtaGCTGACCTGGGACTTGTACCCGGGTCGGTATTTTTTTgcttctggtc
  anti-terminator -5.74 3328836 3328881 cttcgggaacTTCAGGGTAAAATGACTATCAAAATGTGAATTGTAGCTGACCTGGgacttgtacc
  anti-anti-terminator -10.2 3328874 3328914 acggcgcaacGCCCTATAAAGTAAACGATGACCCTTCGGGAACTTCAGGGtaaaatgact
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"





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