RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: iraM
Gene(s): iraM   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[ICWHO] Inferred computationally without human oversight
Reference(s): [1] Mendoza-Vargas A., et al., 2009
Promoter
Name: iraMp1
+1: 1212090
Distance from start of the gene: 87
Sequence: agattccttgctttaaattttattttatataagccatcattttaattaatttatttttttGaggggggggtaatatactca
Evidence: [HTTIM]    
Reference(s): [1] Mendoza-Vargas A., et al., 2009
TF binding sites (TFBSs)
[ArcA,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal ArcA-phosphorylated activator iraMp1 1212099 1212113 -16.5 tataagccatCATTTTAATTAATTTatttttttga nd [AIBSCS] [3]
remote ArcA-phosphorylated activator iraMp1 1212253 1212267 -170.5 ataaaggctaTGTTTTAATTACAGGatgttcagtc nd [AIBSCS] [3]
[FNR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal FNR activator iraMp1 1212154 1212167 -70.5 aaatctcattTTGTTTAACATCCAttgagattcc nd [AIBSCS] [3]
[PhoP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PhoP-phosphorylated activator iraMp1 1212150 1212166 -68.0 aatctcatttTGTTTAACATCCATTGAgattccttgc nd [GEA], [APIORCISFBSCS], [BPP] [2], [4]
remote PhoP-phosphorylated activator iraMp1 1212282 1212298 -199.5 cataatgtttAGCAAATTGGCACAAAGtagcataaag nd [GEA], [APIORCISFBSCS] [2]


Transcription unit          
Name: iraM
Gene(s): iraM   Genome Browser M3D Gene expression COLOMBOS
Evidence: [AISGDTU] Automated inference that a single-gene directon is a transcription unit
[BTEI] Boundaries of transcription experimentally identified
Reference(s): [4] Eguchi Y., et al., 2011
Promoter
Name: iraMp2
+1: 1212123
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 120
Sequence: ttcacaaaatctcattttgtttaacatccattgagattccttgctttaaattttattttaTataagccatcattttaatta
                               -35                    -10   +1                   
Evidence: [ICWHO]
[IHBCE]
[TIM]
Reference(s): [4] Eguchi Y., et al., 2011
[5] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[PhoP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal PhoP-phosphorylated activator iraMp2 1212150 1212166 -35.0 aatctcatttTGTTTAACATCCATTGAgattccttgc nd [APIORCISFBSCS], [BPP], [GEA], [APIORCISFBSCS], [BPP] [2], [4]


Evidence    

 [HTTIM] High-throughput transcription initiation mapping

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [GEA] Gene expression analysis

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [ICWHO] Inferred computationally without human oversight

 [IHBCE] Inferred by a human based on computational evidence

 [TIM] Transcription initiation mapping


Reference(s)    

 [1] Mendoza-Vargas A., Olvera L., Olvera M., Grande R., Vega-Alvarado L., Taboada B., Jimenez-Jacinto V., Salgado H., Juarez K., Contreras-Moreira B., Huerta AM., Collado-Vides J., Morett E., 2009, Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli., PLoS One 4(10):e7526

 [2] Bougdour A., Cunning C., Baptiste PJ., Elliott T., Gottesman S., 2008, Multiple pathways for regulation of sigmaS (RpoS) stability in Escherichia coli via the action of multiple anti-adaptors., Mol Microbiol 68(2):298-313

 [3] Partridge JD., Scott C., Tang Y., Poole RK., Green J., 2006, Escherichia coli transcriptome dynamics during the transition from anaerobic to aerobic conditions., J Biol Chem 281(38):27806-15

 [4] Eguchi Y., Ishii E., Hata K., Utsumi R., 2011, Regulation of acid resistance by connectors of two-component signal transduction systems in Escherichia coli., J Bacteriol 193(5):1222-8

 [5] 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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