ISBps2

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_006351 ND Burkholderia pseudomallei
Burkholderia pseudomallei K96243
DNA section
IS Length : 1233 bp

Ends


IR Length : 18/25

IRL : TGTAGTGGTTCAATGCCCTTGGACGGTTCGAAAAGAAGGTAACGTGTCGT
IRR : TGAAGTGGTCAAGCAACTTTGGACACTGCTCCGGGATAGGCTGCGAGCGC

Insertion site


Left flankDirect repeatRight flankDR Length
CCGCCCGGCGGCTGAGGTGG0

DNA sequence

TGTAGTGGTTCAATGCCCTTGGACGGTTCGAAAAGAAGGTAACGTGTCGTCTGGAGGGCCAAACCATGGTCAGGCGTGCGTTTTCCGAGGAATTCAAGGA
AGAAGCGATACGACTCGTCGTAGAGCAGGGTTACCCCTTTTCCAAGGCGTGTGGGGCGGTTGGAATTGGGGAGACAGCCCTGCGTCGCTGGGTCGCGCAG
TGGCGGGCGGCGCATAGCTTGGATGTGCCCAGTCCTGCACAACTCAGTGCAGACGCGCGCCGGATCAAGGAGCTAGAGGCCCGCGTAGCCGAACTCGAAC
GGGAGCGTGAAGTTTTAAAAAAATCCACGGCCTTCTTCGTCAAGGAGCTCGAACGCTCCTGGAAGTGATCCAGGCGATGGAGAAGGCATACCCGGTAGCG
CTGATGTGTCGACTGGCTGGTGTAGCACGCAGCAGCTATTACGCATGGAGGTCGCGCCAAGGCAGATCCAATCGCGACGCGACGGTGCTGGAAGCGGTGC
GCCGTATTCATGAGGAGACTCGTCGAAGCTACGGCAGCAGGAGGATGTCGCAAGCGTTGCGCTTGCTCGGACACAACGTAGGACGTTATCGGGCACGATC
GTTGATGCGTCAGGCCCGGCTGGTGCGGTCTAAGCGCGTACATCGTTATCGAGCGGCTCAGGCCGAGAGTCTGATTGCGCCGAATCTGCTTGCACGACGA
TTCGATCCGGCGCAGCGCGATCAGGTATGGGTGGGCGACATCACCTTTGTACAGACTAGGCAGGGATGGCTCTACGTGGCCGTGGTCATGGATCTGTACG
CGCGCCGCGTGGTGGGCTGGGCGTTTAGTCAGCACGCGGACACCGACTTGGCACTAAAGGCATTAAGACGGGCCTACGATCATCGTCGTCCGCCACCAGG
CCTGATGTTCCATTCGGATCAGGGCTGCCAATACACGAGCACGCGCTTTCTCGCCGAGCTGCGCGCCCGTGGCACGATCCAGAGCATGAGTCGGCGCGGC
AACTGTTGGGACAACGCGGTGGTCGAGCGCTTCTTCCGAAGCCTCAAAAATGAATGGATCGGCGACCAGTTGTACGTCGATCACCGCCATGCAGAGCAAG
ACATCACTGATTATCTGGTCGATTTTTACAACCATCGTCGCCTTCACTCGGCTGCGAAGGGACTGCCGCCAGCGCGTTTCGAAGCGCTCGCAGCCTATCC
CGGAGCAGTGTCCAAAGTTGCTTGACCACTTCA
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
303 bp100 aa66368+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MVRRAFSEEFKEEAIRLVVEQGYPFSKACGAVGIGETALRRWVAQWRAAHSLDVPSPAQLSADARRIKELEARVAELEREREVLKKSTAFFVKELERSWK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
915 bp304 aa3111225+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

SFKKIHGLLRQGARTLLEVIQAMEKAYPVALMCRLAGVARSSYYAWRSRQGRSNRDATVLEAVRRIHEETRRSYGSRRMSQALRLLGHNVGRYRARSLMR
QARLVRSKRVHRYRAAQAESLIAPNLLARRFDPAQRDQVWVGDITFVQTRQGWLYVAVVMDLYARRVVGWAFSQHADTDLALKALRRAYDHRRPPPGLMF
HSDQGCQYTSTRFLAELRARGTIQSMSRRGNCWDNAVVERFFRSLKNEWIGDQLYVDHRHAEQDITDYLVDFYNHRRLHSAAKGLPPARFEALAAYPGAV
SKVA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1160 bp386 aa661225+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MVRRAFSEEFKEEAIRLVVEQGYPFSKACGAVGIGETALRRWVAQWRAAHSLDVPSPAQLSADARRIKELEARVAELEREREVLKKIHGLLRQGARTLLE
VIQAMEKAYPVALMCRLAGVARSSYYAWRSRQGRSNRDATVLEAVRRIHEETRRSYGSRRMSQALRLLGHNVGRYRARSLMRQARLVRSKRVHRYRAAQA
ESLIAPNLLARRFDPAQRDQVWVGDITFVQTRQGWLYVAVVMDLYARRVVGWAFSQHADTDLALKALRRAYDHRRPPPGLMFHSDQGCQYTSTRFLAELR
ARGTIQSMSRRGNCWDNAVVERFFRSLKNEWIGDQLYVDHRHAEQDITDYLVDFYNHRRLHSAAKGLPPARFEALAAYPGAVSKVA

 

Blast result :
Comments
ISBsp2 is 60% aa similar to ISDac1.
The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Holden,M.T., Titball,R.W., Peacock,S.J., Cerdeno-Tarraga,A.M., Atkins,T., Crossman,L.C., Pitt,T., Churcher,C., Mungall,K., Bentley,S.D., Sebaihia,M., Thomson,N.R., Bason,N., Beacham,I.R., Brooks,K., Brown,K.A., Brown,N.F., Challis,G.L., Cherevach,I., Chillingworth,T., Cronin,A., Crossett,B., Davis,P., DeShazer,D., Feltwell,T., Fraser,A., Hance,Z., Hauser,H., Holroyd,S., Jagels,K., Keith,K.E., Maddison,M., Moule,S., Price,C., Quail,M.A., Rabbinowitsch,E., Rutherford,K., Sanders,M., Simmonds,M., Songsivilai,S., Stevens,K., Tumapa,S., Vesaratchavest,M., Whitehead,S., Yeats,C., Barrell,B.G., Oyston,P.C. and Parkhill,J. (2004) Proc. Natl. Acad. Sci. U.S.A. 101 (39), 14240-14245

2] ISfinder annotation (2009).