RegulonDB RegulonDB 10.9: Operon Form
   

rlmE-ftsH operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit       
Name: rlmE-ftsH
Synonym(s): rrmJ-hflB
Gene(s): ftsH, rlmE   Genome Browser M3D Gene expression COLOMBOS
Note(s): Based on ChIP-chip and consensus sequences (Virtual Footprint), a site of NsrR negatively controlling the ftsH gene has been identified Partridge JD,2009 The consensus sequence found for this gene is AAGATGCTGGAT, which lies in the intergenic region rlmE-ftsH.
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Herman C., et al., 1995
[2] Tomoyasu T., et al., 1993
Promoter
Name: rlmEp2
+1: 3327731
Sigma Factor: Sigma32 Sigmulon
Distance from start of the gene: 67
Sequence: atcgtattttttgcttacgttgggattgaaaacgggtcattctaccgccatctcccatatAtcaccaaataggcgcgtaaa
                          -35                 -10           +1                   
Note(s): This promoter shows an increase in transcription during heat shock
Evidence: [AIPP]
[HIPP]
[ICWHO]
[IDA]
[IEP]
[TIM]
Reference(s): [1] Herman C., et al., 1995
[3] Huerta AM., et al., 2003
[4] Nonaka G., et al., 2006
[5] Wade JT., et al., 2006
Terminator(s)
Type: rho-independent
Sequence: ttgataagaaAAAACCCCGGAGCACGCCCCGGGGTTTTcggtacaaat
Reference(s): [2] Tomoyasu T., et al., 1993


Transcription unit       
Name: rlmE-ftsH
Synonym(s): rrmJ-hflB
Gene(s): ftsH, rlmE   Genome Browser M3D Gene expression COLOMBOS
Note(s): Based on ChIP-chip and consensus sequences (Virtual Footprint), a site of NsrR negatively controlling the ftsH gene has been identified Partridge JD,2009 The consensus sequence found for this gene is AAGATGCTGGAT, which lies in the intergenic region rlmE-ftsH.
Evidence: [LTED] Length of transcript experimentally determined
Reference(s): [1] Herman C., et al., 1995
[2] Tomoyasu T., et al., 1993
Promoter
Name: rlmEp1
+1: 3327760
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 96
Sequence: ggtgctgtttttgtttagtactcagattcatcgtattttttgcttacgttgggattgaaaAcgggtcattctaccgccatc
                     -35                     -10            +1                   
Note(s): The rrmJp1 promoter shows a decrease in transcription during heat shock. The poor match of this promoter with the σ70 consensus sequence suggests additional regulation.
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [1] Herman C., et al., 1995
[3] Huerta AM., et al., 2003
Terminator(s)
Type: rho-independent
Sequence: ttgataagaaAAAACCCCGGAGCACGCCCCGGGGTTTTcggtacaaat
Reference(s): [2] Tomoyasu T., et al., 1993


Evidence    

 [AIPP] Automated inference of promoter position

 [HIPP] Human inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [IDA] Inferred from direct assay

 [IEP] Inferred from expression pattern

 [TIM] Transcription initiation mapping


Reference(s)    

 [1] Herman C., Thevenet D., D'Ari R., Bouloc P., 1995, Degradation of sigma 32, the heat shock regulator in Escherichia coli, is governed by HflB., Proc Natl Acad Sci U S A 92(8):3516-20

 [2] Tomoyasu T., Yuki T., Morimura S., Mori H., Yamanaka K., Niki H., Hiraga S., Ogura T., 1993, The Escherichia coli FtsH protein is a prokaryotic member of a protein family of putative ATPases involved in membrane functions, cell cycle control, and gene expression., J Bacteriol 175(5):1344-51

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] Nonaka G., Blankschien M., Herman C., Gross CA., Rhodius VA., 2006, Regulon and promoter analysis of the E. coli heat-shock factor, sigma32, reveals a multifaceted cellular response to heat stress., Genes Dev 20(13):1776-89

 [5] Wade JT., Roa DC., Grainger DC., Hurd D., Busby SJ., Struhl K., Nudler E., 2006, Extensive functional overlap between sigma factors in Escherichia coli., Nat Struct Mol Biol 13(9):806-14

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