ISSba5

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_009052 ND Shewanella baltica
Shewanella baltica OS233
Shewanella baltica OS155
Shewanella baltica OS195
Shewanella baltica OS185
DNA section
IS Length : 1260 bp

Ends


IR Length : 25/36

IRL : TGTAGTGGCACACTAATTTTGGCCACCTAAATAGAGGTGATATTATTACC
IRR : TGTAGTGGTCAAGTAAAATTGGCCACGGTTTTAGAGTCATTCCAATATAA

Insertion site


Left flankDirect repeatRight flankDR Length
CAGTTAAGGTTAATGTTGTC0
GGAGTCTGTTCTTCGGTCAC0
TTTGACTATAGTATGAGTTACGA3
CCCACCCCATAATGCTCTGT0
TGTTAGATTGCTGAGAATTT0
AAAATGACTGTCGCTAGAAA0
ATGCTTGCTGAATGTCGTTTTTG3
TTATTTGGCAATCTACCAGACAG3
TTTTAGTTAAAAGATGTAGCGAT3

DNA sequence

TGTAGTGGCACACTAATTTTGGCCACCTAAATAGAGGTGATATTATTACCTCGTAGATGACTTTAGGTGAACACATGAGATCGACAACCAGAAAAACATT
TAGTGCTGAATTCAAACTTGAAGCAGCCCAATTAGTCCTCGATAAAAACCATAGCATCATCGAAGCTGCAAAGGCGATGAACGTAGGTAAGTCCACTATG
GATAAATGGGTGAGACAGTTAAAACTAGAACGCCAGGGTGGCACACCAAAAGCATCTCCGATTACCCCTGAACAAATTGAAATCCGTGAGCTGAAGAAGC
AAATAGCTCGTCTTGAGGAGCACAATCTTATCCTAAAAAAGGCTACCGCTCTCTTGATGTCAGACTCGATGAACAATTTACGCTAATCAGCGCACTCAAG
CAGAGCCACTCTATTCTCACAATTTGTAATGCATTCAAAGTGCATCGAAGTAGCTATAAGTATTGGCTAAAAAGAAAAGAACATATTGATGCAGACTTTA
CTATTTTATGCAGTGAAGTGAAGGCTGCACATCGTATTAGTCATGGCTCTGCCGGTGCGCGAACGATAGCGCAATTAGTGACTAACAAAGGGATTGGTCT
CAGTCGTTATCGAGCCCGTAATCTAATGAAAAAGCTTGGGTTATTAAGCTGTCAGCAGCCTAAGCATTCTTATAGAAAAGCGACACAAGAGCATGTTGCA
ATCCCCAATACGCTTAATCGACAGTTTGCAGTAACTCAACCAGATCAAGTGTGGTGTGGCGACGTGACGTATGTTTGGGTCGGTAATCGTTGGGCCTATC
TAGCCGTTGTTTTAGACTTATTTTCCCGCAAACCTGTTGGATGGGCTTTGTCATTATCACCAGATAGTGAGCTGACCTGTAAAGCTTTGAAAATGGCATT
TGAGTTAAGGGGGAAGCCTGAGAATGTGATATATCACAGCGATCAAGGTTCGCATTACACAAGCTTGAAATTCAGACAATTAATATGGCGTCTTCAGATT
GAGCAAAGTATGAGTCGTCGCGGGAATTGTTGGGATAACGCACCAATGGAGCGTTTCTTTAGAAGTTTGAAATCTGAGTGGATACCCGCCAGTGGTTATG
GGAATTTTACAGAAGCAGATAAAGAGATCACAAATTACATCACTGGATATTACAGTGAGACCAGACCCCATCAATATAATGGTGGGTTAACGCCAAATGA
GTCAGAACGTTTATATTGGAATGACTCTAAAACCGTGGCCAATTTTACTTGACCACTACA
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
312 bp103 aa75386+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRSTTRKTFSAEFKLEAAQLVLDKNHSIIEAAKAMNVGKSTMDKWVRQLKLERQGGTPKASPITPEQIEIRELKKQIARLEEHNLILKKATALLMSDSMN
NLR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
866 bp303 aa3871252+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

GYRSLDVRLDEQFTLISALKQSHSILTICNAFKVHRSSYKYWLKRKEHIDADFTILCSEVKAAHRISHGSAGARTIAQLVTNKGIGLSRYRARNLMKKLG
LLSCQQPKHSYRKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHS
DQGSHYTSLKFRQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVA
NFT

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1178 bp392 aa751252+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRSTTRKTFSAEFKLEAAQLVLDKNHSIIEAAKAMNVGKSTMDKWVRQLKLERQGGTPKASPITPEQIEIRELKKQIARLEEHNLILKKGYRSLDVRLDE
QFTLISALKQSHSILTICNAFKVHRSSYKYWLKRKEHIDADFTILCSEVKAAHRISHGSAGARTIAQLVTNKGIGLSRYRARNLMKKLGLLSCQQPKHSY
RKATQEHVAIPNTLNRQFAVTQPDQVWCGDVTYVWVGNRWAYLAVVLDLFSRKPVGWALSLSPDSELTCKALKMAFELRGKPENVIYHSDQGSHYTSLKF
RQLIWRLQIEQSMSRRGNCWDNAPMERFFRSLKSEWIPASGYGNFTEADKEITNYITGYYSETRPHQYNGGLTPNESERLYWNDSKTVANFT

 

Blast result :
Comments
There are 7 copies of ISSba5 encoded in the Shewanella baltica OS155 genome. 1 copy is interrupted by a different IS element. ORF3 is the deduced product of programmed frameshifting of ORF1 and ORF2. The ISSba5 transposase has 56% identity with IS911_aa3.
References
1] Romine, M. (2008) Direct submission.