RegulonDB RegulonDB 10.9: Gene Form
   

rayT gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

lfhA dinB lafU yafL rayT LexA terminator dinBp dinBp rayTp8 rayTp8 TSS_446 TSS_446 rayTp1 rayTp1

Gene      
Name: rayT    Texpresso search in the literature
Synonym(s): ECK0229, G6112, b0228, yafM
Genome position(nucleotides): 247637 --> 248134 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
44.78
External database links:  
ASAP:
ABE-0000779
ECHOBASE:
EB2944
ECOLIHUB:
yafM
OU-MICROARRAY:
b0228
STRING:
511145.b0228
COLOMBOS: rayT


Product      
Name: REP-associated tyrosine transposase
Synonym(s): RayT, TnpAREP, YafM
Sequence: Get amino acid sequence Fasta Format
Molecular weight: 20.042
Isoelectric point: 9.897
Classification:
Multifun Terms (GenProtEC)  
  8 - extrachromosomal --> 8.3 - transposon related
Gene Ontology Terms (GO)  
molecular_function GO:0032448 - DNA hairpin binding
GO:0003677 - DNA binding
GO:0003697 - single-stranded DNA binding
GO:0004803 - transposase activity
GO:0000405 - bubble DNA binding
GO:0043565 - sequence-specific DNA binding
GO:0000014 - single-stranded DNA endodeoxyribonuclease activity
biological_process GO:0006310 - DNA recombination
GO:0006313 - transposition, DNA-mediated
GO:0032196 - transposition
Note(s): Note(s): ...[more].
Evidence: [IDA] Inferred from direct assay
Reference(s): [1] Bertels F., et al., 2011
[2] Bockova M., et al., 2015
[3] Ton-Hoang B., et al., 2012
External database links:  
DIP:
DIP-11217N
ECOCYC:
G6112-MONOMER
ECOLIWIKI:
b0228
INTERPRO:
IPR002686
INTERPRO:
IPR036515
PDB:
4ER8
PRIDE:
Q47152
REFSEQ:
NP_414763
SMART:
SM01321
SMR:
Q47152
UNIPROT:
Q47152


Operon      
Name: rayT         
Operon arrangement:
Transcription unit        Promoter
rayT


RNA cis-regulatory element    
Attenuation: Translational


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
  promoter rayTp1 247544 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter TSS_446 247622 forward nd [RS-EPT-CBR] [5]
  promoter rayTp8 247624 forward Similarity to the consensus
Read more >
[ICWHO] [4]


Evidence    

 [ICWHO] Inferred computationally without human oversight

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates



Reference(s)    

 [1] Bertels F., Rainey PB., 2011, Within-genome evolution of REPINs: a new family of miniature mobile DNA in bacteria., PLoS Genet 7(6):e1002132

 [2] Bockova M., Springer T., Necasova I., Nunvar J., Schneider B., Homola J., 2015, Monitoring RAYT activity by surface plasmon resonance biosensor., Anal Bioanal Chem 407(14):3985-93

 [3] Ton-Hoang B., Siguier P., Quentin Y., Onillon S., Marty B., Fichant G., Chandler M., 2012, Structuring the bacterial genome: Y1-transposases associated with REP-BIME sequences., Nucleic Acids Res 40(8):3596-609

 [4] 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

 [5] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.


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