RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit          
Name: rspA-rspB
Gene(s): rspB, rspA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF] Inferred computationally without human oversight
[EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
[EXP-IMP-POLAR-MUTATION] Polar mutation
Reference(s): [1] Huisman GW., et al., 1994
[2] Shimada T., et al., 2021
Promoter
Name: rspAp
+1: 1655171
Distance from start of the gene: 30
Sequence: ctccggcttttttcgatctttatacttgtatggtagtagctcagttgcgtagatttcatgCatcacgacaagcgatgcaag
Evidence: [EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [2] Shimada T., et al., 2021
TF binding sites (TFBSs)
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator rspAp 1655221 1655242 -60.5 atacgcctttTTTTGTGATCACTCCGGCTTTTttcgatcttt nd [EXP-IEP-RNA-SEQ], [COMP-AINF], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [3]
[RspR,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal RspR repressor rspAp 1655201 1655211 -35.0 tttcgatcttTATACTTGTATggtagtagct nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [2], [4]


Evidence    

 [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] Transcription initiation mapping

 [EXP-IEP-RNA-SEQ] high throughput RNA-seq evidence

 [COMP-AINF] Inferred computationally without human oversight

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis


Reference(s)    

 [1] Huisman GW., Kolter R., 1994, Sensing starvation: a homoserine lactone--dependent signaling pathway in Escherichia coli., Science 265(5171):537-9

 [2] Shimada T., Ogasawara H., Kobayashi I., Kobayashi N., Ishihama A., 2021, Single-Target Regulators Constitute the Minority Group of Transcription Factors in Escherichia coli K-12., Front Microbiol 12:697803

 [3] Li Z., Pan Q., Xiao Y., Fang X., Shi R., Fu C., Danchin A., You C., 2019, Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation., Microb Biotechnol 12(2):360-376

 [4] Sakihama Y., Mizoguchi H., Oshima T., Ogasawara N., 2012, YdfH identified as a repressor of rspA by the use of reduced genome Escherichia coli MGF-01., Biosci Biotechnol Biochem 76(9):1688-93

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