RegulonDB RegulonDB 11.1: Operon Form
   

glrR-glnB operon and associated TUs in Escherichia coli K-12 genome




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


Transcription unit          
Name: glnB
Gene(s): glnB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the glnB gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the three promoters that transcribe the gene could be regulated by the regulators Kumar R,2011
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] He B., et al., 1993
Promoter
Name: glnBp1
+1: 2687441
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 33
Sequence: cacgagctggatgcaaacgatttcaaggaatgaattggcgttatgtgttacgtttagcagAtcaaaagacaggcgaccttt
                           -35                        -10   +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] He B., et al., 1993
[2] Huerta AM., et al., 2003
[3] van Heeswijk WC., et al., 1993
TF binding sites (TFBSs)
[PurR,-] 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 PurR-hypoxanthine repressor glnBp1 2687476 2687491 -42.5 cacgagctggATGCAAACGATTTCAAggaatgaatt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] S [1]


Transcription unit          
Name: glnB
Synonym(s): OP00126
Gene(s): glnB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the glnB gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the three promoters that transcribe the gene could be regulated by the regulators Kumar R,2011
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] He B., et al., 1993
[4] Liu J., et al., 1993
Promoter
Name: glnBp2
+1: 2687503
Sigma Factor: Sigma70 Sigmulon
Distance from start of the gene: 95
Sequence: tcacccacgcggcgagaatggcggggcgcaaccggacagaattttataaactgctttcccGacacgagctggatgcaaacg
                            -35                     -10     +1                   
Evidence: [COMP-AINF]
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] He B., et al., 1993
[2] Huerta AM., et al., 2003
[4] Liu J., et al., 1993
TF binding sites (TFBSs)
[PurR,-] 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 PurR-hypoxanthine repressor glnBp2 2687476 2687491 20.5 cacgagctggATGCAAACGATTTCAAggaatgaatt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] S [1]


Transcription unit       
Name: glnB
Gene(s): glnB   Genome Browser M3D Gene expression COLOMBOS
Note(s): The expression of the glnB gene was increased in mutants for two genes that encode two terminal oxidases, cyoA and cydB, and in mutants of two transcriptional regulators, Fnr and Fur. However, it is unknown if the effects of the transcriptional regulators act directly on the gene expression; also, it is unknown which of the three promoters that transcribe the gene could be regulated by the regulators Kumar R,2011
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [1] He B., et al., 1993
Promoter
Name: glnBp3
+1: 2687526
Distance from start of the gene: 118
Sequence: gctgcaaatcaccaaaggcaacgtcacccacgcggcgagaatggcggggcgcaaccggacAgaattttataaactgctttc
Evidence: [EXP-IDA-TRANSCRIPTION-INIT-MAPPING]
Reference(s): [1] He B., et al., 1993


Transcription unit       
Name: glrR-glnB
Gene(s): glnB, glrR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
Reference(s): [3] van Heeswijk WC., et al., 1993


Transcription unit       
Name: yfhA
Gene(s): glrR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [COMP-HINF] Inferred by a human based on computational evidence


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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

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

 [COMP-HINF-SIMILAR-TO-CONSENSUS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [EXP-IDA-BINDING-OF-CELLULAR-EXTRACTS] Binding of cellular extracts


Reference(s)    

 [1] He B., Choi KY., Zalkin H., 1993, Regulation of Escherichia coli glnB, prsA, and speA by the purine repressor., J Bacteriol 175(11):3598-606

 [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] van Heeswijk WC., Rabenberg M., Westerhoff HV., Kahn D., 1993, The genes of the glutamine synthetase adenylylation cascade are not regulated by nitrogen in Escherichia coli., Mol Microbiol 9(3):443-57

 [4] Liu J., Magasanik B., 1993, The glnB region of the Escherichia coli chromosome., J Bacteriol 175(22):7441-9

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