RegulonDB RegulonDB 10.9: Operon Form
   

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




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


Transcription unit       
Name: yggN
Synonym(s): ecfF
Gene(s): yggN   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: yggNp2b
+1: 3101640
Distance from start of the gene: 17
Sequence: ccggcatggaaaacgcgtactttgttatcaatctggggccagcaaatgctggcctgatttTttcttgagggaagactatga
Note(s): The transcription initiation of ecfFp2 was determined by S1 mapping by Yamamoto K,2005and it was 104 nucleotides downstream from site previously identified by Dartigalongue C,2001 and therefore we considered that it is a different promoter and we have re-named as ecfFp2b.
ecfFp2b promoter was induced by zinc in a microarray analysis Yamamoto K,2005
Evidence: [TIM]
Reference(s): [1] Yamamoto K., et al., 2005


Transcription unit       
Name: yggN
Synonym(s): ecfF
Gene(s): yggN   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: yggNp2
+1: 3101744
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 121
Sequence: aagcatacgggcgatgacaaatgcaaaactgcctgatgcgctacgcttatcaggcctggaAagatgcacgatcgagtaggc
                          -35                   -10         +1                   
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [2] Dartigalongue C., et al., 2001
[3] Huerta AM., et al., 2003


Transcription unit       
Name: yggN
Synonym(s): ecfF
Gene(s): yggN   Genome Browser M3D Gene expression COLOMBOS
Promoter
Name: yggNp1
+1: 3101798
Sigma Factor: Sigma24 Sigmulon
Distance from start of the gene: 175
Sequence: caaactggatgaggtacgcaccagcgaacttttcgacgtttggtgggactaagaaagcatAcgggcgatgacaaatgcaaa
                          -35                   -10         +1                   
Note(s): The yggNp1 promoter was induced by zinc in a microarray analysis Yamamoto K,2005
The transcriptional start site of the yggNp1 promoter was also determined by Rhodius VA,2005 and it was different by 4 bp from the one characterized by Dartigalongue C,2001
Evidence: [HIPP]
[ICWHO]
[TIM]
Reference(s): [2] Dartigalongue C., et al., 2001
[3] Huerta AM., et al., 2003
[4] Rhodius VA., et al., 2005
[1] Yamamoto K., et al., 2005


RNA cis-regulatory element    
Regulation, transcriptional elongation  
Attenuator type: Transcriptional
Strand: reverse
  Structure type Energy LeftPos RightPos Sequence (RNA-strand)
  terminator -16.5 3101635 3101671 ctttgttatcAATCTGGGGCCAGCAAATGCTGGCCTGATTTTTTCTtgagggaaga
  anti-terminator -5.9 3101664 3101701 ttacgccgcaTCCGGCATGGAAAACGCGTACTTTGTTATCAATCTGGggccagcaaa
  anti-anti-terminator -7.7 3101685 3101715 gcgggataagGTGTTTACGCCGCATCCGGCATGGAAAACGcgtactttgt
Notes: "The provided "Sequence" is that of the RNA strand, i.e. U's are shown instead of T's and regulators on the reverse strand will appear as the reverse complement of the sequence delimited by LeftPos-RigtPos"





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