RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp4
+1: 1996857
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 25
Sequence: ataaattatatataaatcttatttatgtgatagtttgaattatcattataaatgatactcActctcaggggcgttgcggtt
Evidence: [IHBCE]
[TIM]
Reference(s): [1] Yakhnin H., et al., 2011


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp3
+1: 1996867
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 35
Sequence: cctgaataatataaattatatataaatcttatttatgtgatagtttgaattatcattataAatgatactcactctcagggg
                            -35                    -10      +1                   
Evidence: [IHBCE]
[TIM]
Reference(s): [1] Yakhnin H., et al., 2011


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp2b
+1: 1996893
Distance from start of the gene: 61
Sequence: cgatggcttgcaaaagtaattcattgcctgaataatataaattatatataaatcttatttAtgtgatagtttgaattatca
Evidence: [TIM]
Reference(s): [2] Hao Y., et al., 2016


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp2
+1: 1996897
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 65
Sequence: aatgcgatggcttgcaaaagtaattcattgcctgaataatataaattatatataaatcttAtttatgtgatagtttgaatt
                            -35                    -10      +1                   
Evidence: [ICWHO]
[IHBCE]
[TIM]
Reference(s): [3] Huerta AM., et al., 2003
[1] Yakhnin H., et al., 2011


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp1b
+1: 1996910
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 78
Sequence: aataacataagagaatgcgatggcttgcaaaagtaattcattgcctgaataatataaattAtatataaatcttatttatgt
                         -35                      -10       +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Hao Y., et al., 2016
[3] Huerta AM., et al., 2003


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Yakhnin H., et al., 2011
Promoter
Name: sdiAp1
+1: 1996917
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 85
Sequence: actcattaataacataagagaatgcgatggcttgcaaaagtaattcattgcctgaataatAtaaattatatataaatctta
                           -35                  -10         +1                   
Evidence: [IHBCE]
[TIM]
Reference(s): [1] Yakhnin H., et al., 2011


Transcription unit       
Name: sdiA
Gene(s): sdiA   Genome Browser M3D Gene expression COLOMBOS
Note(s): Expression of sdiA is inhibited by glucose Zhou X,2008
Both sdiA and rcsA are involved in acyl-homoserine lactone (AHL)-mediated induction of the prophage process, and this induction is RecA independent Ghosh D, Roy K, Williamson KE, Srinivasiah S, Wommack KE, Radosevich M,2009 Based on analysis with mutants, sdiA does not have any direct negative or positive regulatory role in rcsA expression, and the data suggest that intermediate transducers are involved in carrying the AHL-SdiA-mediated signal to activate rcsA for prophage induction Ghosh D, Roy K, Williamson KE, Srinivasiah S, Wommack KE, Radosevich M,2009
Evidence: [ICWHO] Inferred computationally without human oversight


Evidence    

 [IHBCE] Inferred by a human based on computational evidence

 [TIM] Transcription initiation mapping

 [ICWHO] Inferred computationally without human oversight


Reference(s)    

 [1] Yakhnin H., Baker CS., Berezin I., Evangelista MA., Rassin A., Romeo T., Babitzke P., 2011, CsrA represses translation of sdiA, which encodes the N-acylhomoserine-L-lactone receptor of Escherichia coli, by binding exclusively within the coding region of sdiA mRNA., J Bacteriol 193(22):6162-70

 [2] Hao Y., Updegrove TB., Livingston NN., Storz G., 2016, Protection against deleterious nitrogen compounds: role of σS-dependent small RNAs encoded adjacent to sdiA., Nucleic Acids Res 44(14):6935-48

 [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

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