RegulonDB RegulonDB 10.10: Operon Form
   

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




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


Transcription unit          
Name: hchA
Gene(s): hchA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
Reference(s): [1] Mujacic M., et al., 2006
Promoter
Name: hchAp2
+1: 2035630
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 205
Sequence: tccacagcactaaatctctccccgccaccccgtacctctgataatggtctaaaatcattgAagccacttgcgacgacgttg
                            -35              -10            +1                   
Evidence: [ICWHO]
[IEP]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[3] Maciag A., et al., 2011
[1] Mujacic M., et al., 2006
TF binding sites (TFBSs)
[H-NS,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd H-NS repressor hchAp2 nd nd nd nd nd [GEA], [BPP] [1]


Transcription unit          
Name: hchA
Gene(s): hchA   Genome Browser M3D Gene expression COLOMBOS
Evidence: [BTEI] Boundaries of transcription experimentally identified
[ICWHO] Inferred computationally without human oversight
Reference(s): [1] Mujacic M., et al., 2006
Promoter
Name: hchAp1
+1: 2035780
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 55
Sequence: cgccgactaccgctttcgatatattgactcaattttccagcctggttaaaaatagcgaccAgctcagtcgcaaatatagtg
                        -35                    -10          +1                   
Evidence: [ICWHO]
[TIM]
Reference(s): [2] Huerta AM., et al., 2003
[1] Mujacic M., et al., 2006
TF binding sites (TFBSs)
[H-NS,-] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence (Confirmed, Strong, Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
nd H-NS repressor hchAp1 nd nd nd nd nd [GEA], [BPP] [1]


Evidence    

 [ICWHO] Inferred computationally without human oversight

 [IEP] Inferred from expression pattern

 [TIM] Transcription initiation mapping

 [GEA] Gene expression analysis

 [BPP] Binding of purified proteins


Reference(s)    

 [1] Mujacic M., Baneyx F., 2006, Regulation of Escherichia coli hchA, a stress-inducible gene encoding molecular chaperone Hsp31., Mol Microbiol 60(6):1576-89

 [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] Maciag A., Peano C., Pietrelli A., Egli T., De Bellis G., Landini P., 2011, In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements., Nucleic Acids Res 39(13):5338-55

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