ISRle5

  • Family IS3
  • Group IS407
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008380 ND Rhizobium leguminosarum
Rhizobium leguminosarum biovar viciae 3841
DNA section
IS Length : 1196 bp

Ends


IR Length : 22/30

IRL : TGGACCAGTATTGGTTAGAGTTTTCCGGTGCATTTTCCTGGCTGGGAAAG
IRR : TGGACCACCGGAGGCTGGAGTTTTCCGGCTTCGTTCAGGGAGGTGGGCTG

Insertion site


Left flankDirect repeatRight flankDR Length
CCCTTCAAACGAATCCTGGG0

DNA sequence

TGGACCAGTATTGGTTAGAGTTTTCCGGTGCATTTTCCTGGCTGGGAAAGGAACGGAAGACGATGAAGGCATCGCAGTTTTCGGACGCTCAGAAAGCGCT
TGTTCTGAAGCAGGGTGACGAAGGTGTGCCGGTGGCGGAGATCTGCCGGAGGGCGGGAATCAGCCAGGCGACCTACTTCAATTGGAAGAAATATGCCGGC
ATGTTGCCGCCGGAGATGAAGAAGCTGAGGCAACTCGAGGACGAGAACGCACGGCTGAAGAAGATCGTCGCGGACCTAACACTCGACCGTGAGATGCTGC
AGGACGTCATTCGCCGAAAGCTCTAAGGCCTGCTCGCAAGCGGGAGGTGGTGAAGGGCATGTGCCGCGATTGGGCGATCTCGATCCGGCGTGCCTGTGGG
GCGCTGAACTTCGATCGTTCAAGCTACCACTACACCTCTCGCCGTGCCGATCAGGCCGGCCTGGAACGTCGTATTCGCGAGATCTGCGAAACCCGAGTGC
GCTACGGCTATCGTCGCGTGCATGTGCTCTTAGAGCGTGAGGGTTGGGGCACCAACATCAAGCGAACCTATAAGATTTACAGGGACTTGGGCCTTCAACT
GCGGAACAAAACGCCAAAGCGCCGGGTCAAAGCCAAACTGCGGGAGGATCGGCGAATGGCGGTTGGACCGAATGATGTCTGGGCCATGGACTTCGTTCAC
GACCAGCTGGCGACCGGAAAGAAGTTGCGGGTTCTGACGGTGATCGACACCTTCTCGCGCTATGTGCCGGTGCTTGATCCGCGTCACAGCTATCGCGGTG
AAGACGTCGTGCAAACCTTGGAACGGATATGCCGGCAGGTCGGTTATCCGAAGACGATCCGTGTCGATCAGGGCACGGAATTCGTGTCACGCGATCTCGA
TCTTTGGGCCTATGCCAAGGGTGTGACCTTGGACTTCTCACGTCCAGGCAAGCCGACGGACAATGCCTTCATCGAAGCATTCAACGGCCGCTTCCGAGCC
GAATGTCTGAACCAGCATTGGTTCCTGACCCTTGCGGATGCCCGCGAAAAGATGGAGGATTGGCGCAGAGACTACAATGAGGTTCGGCCACATGGTGCCA
TCGGCAATAAGGTGCCAATCTTACTGATGAATCCGGGAGGCGCAACCAGCCCACCTCCCTGAACGAAGCCGGAAAACTCCAGCCTCCGGTGGTCCA
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
264 bp87 aa63326+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKASQFSDAQKALVLKQGDEGVPVAEICRRAGISQATYFNWKKYAGMLPPEMKKLRQLEDENARLKKIVADLTLDREMLQDVIRRKL

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
870 bp289 aa2931162+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

DAAGRHSPKALRPARKREVVKGMCRDWAISIRRACGALNFDRSSYHYTSRRADQAGLERRIREICETRVRYGYRRVHVLLEREGWGTNIKRTYKIYRDLG
LQLRNKTPKRRVKAKLREDRRMAVGPNDVWAMDFVHDQLATGKKLRVLTVIDTFSRYVPVLDPRHSYRGEDVVQTLERICRQVGYPKTIRVDQGTEFVSR
DLDLWAYAKGVTLDFSRPGKPTDNAFIEAFNGRFRAECLNQHWFLTLADAREKMEDWRRDYNEVRPHGAIGNKVPILLMNPGGATSPPP

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1100 bp366 aa631162+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKASQFSDAQKALVLKQGDEGVPVAEICRRAGISQATYFNWKKYAGMLPPEMKKLRQLEDENARLKKIVADLTLDREMLQDVIRRKALRPARKREVVKGM
CRDWAISIRRACGALNFDRSSYHYTSRRADQAGLERRIREICETRVRYGYRRVHVLLEREGWGTNIKRTYKIYRDLGLQLRNKTPKRRVKAKLREDRRMA
VGPNDVWAMDFVHDQLATGKKLRVLTVIDTFSRYVPVLDPRHSYRGEDVVQTLERICRQVGYPKTIRVDQGTEFVSRDLDLWAYAKGVTLDFSRPGKPTD
NAFIEAFNGRFRAECLNQHWFLTLADAREKMEDWRRDYNEVRPHGAIGNKVPILLMNPGGATSPPP

 

Blast result :
Comments
ISRle5 is 90% (ORFA) and 80% (ORFB) aa similar to ISBrsp1. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Young,J.W., Crossman,L.C., Johnston,A.W.B., Thomson,N.R., Ghazoui,Z.F., Hull,K.H., Wexler,M., Curson,A.R.J., Todd,J.D., Poole,P.S., Mauchline,T.H., East,A.K., Quail,M.A., Churcher,C., Arrowsmith,C., Cherevach,A., Chillingworth,T., Clarke,K., Cronin,A., Davis,P., Fraser,A., Hance,Z., Hauser,H., Jagels,K., Moule,S., Mungall,K., Norbertczak,H., Rabbinowitsch,E., Sanders,M., Simmonds,M., Whitehead,S. and Parkhill,J. (2006) Direct submission GenBank.