RegulonDB RegulonDB 11.1: Gene Form
   

gadY gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

gadX gadW gadY GadX GadX GadX GadW GadX GadW PhoP YdeO gadYp gadYp gadWp2 gadWp2 gadWp1 gadWp1

Gene      
Name: gadY    Texpresso search in the literature
Synonym(s): ECK3500, G0-8914, IS183, b4452
Genome position(nucleotides): 3664864 --> 3664969
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 49.06
Reference(s): [1] Opdyke JA., et al., 2004
External database links:  
ASAP:
 ABE-0047272
ECHOBASE:
 EB4538
ECOLIHUB:
 gadY
COLOMBOS: gadY


Product      
Name: small regulatory RNA GadY
Synonym(s): GadY, IS183
Type: small RNA
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.7 - antisense RNA
Gene Ontology Terms (GO)  
molecular_function GO:0005515 - protein binding
biological_process GO:0010468 - regulation of gene expression
GO:0071468 - cellular response to acidic pH
GO:0031439 - positive regulation of mRNA cleavage
GO:1902201 - negative regulation of bacterial-type flagellum-dependent cell motility
Note(s): Note(s): ...[more].
Evidence: [EXP-IDA] Inferred from direct assay
[EXP-IEP] Inferred from expression pattern
Reference(s): [2] Lei GS., et al., 2011
[3] Opdyke JA., et al., 2011
[1] Opdyke JA., et al., 2004
[4] Webb J., et al., 2019
External database links:  
ECOCYC:
 IS183-RNA
ECOLIWIKI:
 b4452


Operon      
Name: gadY         
Operon arrangement:
Transcription unit        Promoter
gadY


Transcriptional Regulation      
Display Regulation             
Activated by: GadX, SdiA, RcsB
Repressed by: GadW


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References


Reference(s)    

 [1] Opdyke JA., Kang JG., Storz G., 2004, GadY, a small-RNA regulator of acid response genes in Escherichia coli., J Bacteriol 186(20):6698-705

 [2] Lei GS., Syu WJ., Liang PH., Chak KF., Hu WS., Hu ST., 2011, Repression of btuB gene transcription in Escherichia coli by the GadX protein., BMC Microbiol 11(1):33

 [3] Opdyke JA., Fozo EM., Hemm MR., Storz G., 2011, RNase III participates in GadY-dependent cleavage of the gadX-gadW mRNA., J Mol Biol 406(1):29-43

 [4] Webb J., Springthorpe V., Rossoni L., Minde DP., Langer S., Walker H., Alstrom-Moore A., Larson T., Lilley K., Eastham G., Stephens G., Thomas GH., Kelly DJ., Green J., 2019, Systems Analyses Reveal the Resilience of Escherichia coli Physiology during Accumulation and Export of the Nonnative Organic Acid Citramalate., mSystems 4(4)

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