RegulonDB RegulonDB 11.1: Operon Form
   

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




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


Transcription unit       
Name: panD
Gene(s): panD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF-SINGLE-DIRECTON] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: panDp1
+1: 146745
Distance from start of the gene: 51
Sequence: aatgccgtcagatgagtagacactaaacaaaaatcgggcaatactgcgtgagaatttcctCaaagcaggcatcgcctgctt
Evidence: [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP]
Reference(s): [1] Raghavan R., et al., 2011


Transcription unit       
Name: panD
Gene(s): panD   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-AINF-SINGLE-DIRECTON] Automated inference that a single-gene directon is a transcription unit
Promoter
Name: panDp2
+1: 146754
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 60
Sequence: gctgacgcaaatgccgtcagatgagtagacactaaacaaaaatcgggcaatactgcgtgaGaatttcctcaaagcaggcat
                               -35                    -10   +1                   
Evidence: [COMP-HINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
[IC]
[RS-EPT-CBR]
Reference(s): [2] Salgado H, et al., 2012
[3] Wiebe H., et al., 2015


Evidence    

 [EXP-IDA-HPT-TRANSCR-INIT-M-RACE-MAP] High-throughput transcription initiation mapping

 [COMP-HINF] Inferred by a human based on computational evidence

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

 [IC] Inferred by curator

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] Raghavan R., Sage A., Ochman H., 2011, Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli., J Bacteriol 193(11):2871-4

 [2] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [3] Wiebe H., Gurlebeck D., Gross J., Dreck K., Pannen D., Ewers C., Wieler LH., Schnetz K., 2015, YjjQ Represses Transcription of flhDC and Additional Loci in Escherichia coli., J Bacteriol 197(16):2713-20

 [4] Lalaouna D., Eyraud A., Devinck A., Prevost K., Masse E., 2019, GcvB small RNA uses two distinct seed regions to regulate an extensive targetome., Mol Microbiol 111(2):473-486

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