RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: ascFB
Gene(s): ascF, ascB   Genome Browser M3D Gene expression COLOMBOS
Note(s): ascFB is a cryptic operon that is transcribed divergently from ascG. This cryptic operon is activated by the insertion of IS186 into the ascG (repressor) gene (but that activation is readily reversible by precise excision of IS186). Hall and Xu (1992) reported the complete nucleotide sequence of the asc operon and the mechanism by which the cryptic operon is activated. They also mentioned that ascFB is paralogous (homologous via a gene duplication) to bglFB, and ascG is paralogous to galR Hall BG,1992
Modifications (duplications of 10 nt) in the intergenic regions between ascF and ascB modulate transcription of ascB and the growth rate on cellobiose minimal medium Parisutham V,2015. Datsenko KA, Wanner BL,2000
Reference(s): [1] Hall BG., et al., 1992
Promoter
Name: ascFp
+1: 2839429
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 95
Sequence: ataaaaaatgaacaattcactctcttgcttatttagtgacaactattcatgattttgtgaAaccggtttcttaattccgtt
                         -35                    -10         +1                   
Evidence: [AIPP]
[ICWHO]
[TIM]
Reference(s): [1] Hall BG., et al., 1992
[2] Huerta AM., et al., 2003
[3] Ishida Y., et al., 2009
TF binding sites (TFBSs)
[AscG,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal AscG repressor ascFp 2839350 2839364 -72.5 aaaatattcaGGTGACCGGTTTCACaaatataaaa nd [GEA], [AIBSCS], [BPP] [1], [3]
proximal AscG repressor ascFp 2839426 2839440 4.5 catgattttgTGAAACCGGTTTCTTaattccgttt nd [GEA], [AIBSCS], [BPP] [3]
[CRP,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal CRP-cyclic-AMP activator ascFp 2839347 2839368 -71.5 ggaaaaatatTCAGGTGACCGGTTTCACAAATataaaaaatg nd [BPP], [ICWHO] [3]


Transcription unit       
Name: ascB
Gene(s): ascB   Genome Browser M3D Gene expression COLOMBOS
Note(s): Modifications (duplications of 10 nt) in the intergenic regions between ascF and ascB modulate transcription of ascB and the growth rate on cellobiose minimal medium Parisutham V,2015. Datsenko KA, Wanner BL,2000 Sequence similarities suggest that the asc operon is probably a duplication of the bgl operon Hall BG,1992
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [4] Parisutham V., et al., 2015
Promoter
Name: ascBp
+1: 2840942
Distance from start of the gene: 48
Sequence: gctcggctttgaggatattcctgttgaggaagcggctgcccaggcgcgaaagtatcagagCgtacaaccgaccgtcgccaa
Evidence: [TIM]
Reference(s): [4] Parisutham V., et al., 2015


Evidence    

 [AIPP] Automated inference of promoter position

 [ICWHO] Inferred computationally without human oversight

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Hall BG., Xu L., 1992, Nucleotide sequence, function, activation, and evolution of the cryptic asc operon of Escherichia coli K12., Mol Biol Evol 9(4):688-706

 [2] 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

 [3] Ishida Y., Kori A., Ishihama A., 2009, Participation of regulator AscG of the beta-glucoside utilization operon in regulation of the propionate catabolism operon., J Bacteriol 191(19):6136-44

 [4] Parisutham V., Lee SK., 2015, Novel Functions and Regulation of Cryptic Cellobiose Operons in Escherichia coli., PLoS One 10(6):e0131928

 [5] Beisel CL., Updegrove TB., Janson BJ., Storz G., 2012, Multiple factors dictate target selection by Hfq-binding small RNAs., EMBO J 31(8):1961-74

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