ISPsy11

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
AE016853 ND Pseudomonas syringae
Pseudomonas syringae DC3000
DNA section
IS Length : 1313 bp

Ends


IR Length : 24/28

IRL : TGTCCCGTCCTGAATAAGGTTTACACCTTCTGACCTTTCCTCAGGAGGAC
IRR : TGTCTAGTCCTGAAATAGGTTTACACCTGTTTCACGCTCAAAACGCCCGA

Insertion site


Left flankDirect repeatRight flankDR Length
TTTATTTCTTCCTCCACAACGAA3
TTTTTGTGTGCTTTCATTCAGCC3
TTTGTTTTAACGTTATCCAGATT3

DNA sequence

TGTCCCGTCCTGAATAAGGTTTACACCTTCTGACCTTTCCTCAGGAGGACTCAATGGATTCGGGTAAAAGGCGCAGCCAGCGCGATTACACGCTAGCCTT
TAAATTATCGGTCGTAGATCAGGTTGAAAAAGGCGAGTTGAGTTATAAAGAAGCCCAACGACGCTATGGCATCCAAGGCCGGTCGACGGTGCTGGTCTGG
TTACGAAAGCACGGTCGACAGGATTGGAGCCAAGGCGCATCAATTCGAGAGCAGAGGAGCAGGTCCATGACCGAGCCAACCCTCCCGCCGACACCCGAGC
AGCGGATTAAAGAGCTTGAAGAACAGCTGGAGCTGAGCAATCAGAAGGCTCAGTTCTTTGAAGCCGTCGTCAACGTTCTGAAAAATGACTACGGCGTTTC
TGTCGTAAAAAAGCCACCCGGCAAGTCCTCTCGCAAGGGCAAATCCAAGACCTGAGCATTACCAGGGCTTGCCTGTTCATGGGTATTTCGCGCCAAGCGT
ATTACAAGCGTAATCGCGCTTTTGACGCGAGAGTCTGCCAAGACCAAGAGGTGGTGGACTTCGTCCTGGAAAAGCGGCGTCGCCAGCCCAAGTTGGGAAC
GCGCAAGCTGCACTACTTGATGAGCGTCGAAGCTCCTGCGTCGTTGTGCGTGGGTAGAGATCGTATGTTTACTATCCTTCGTGGTGCGCGCGAGCTGGTT
CCGCGTAAACGGGCTTATCACAAGACCACTCATAGCCATCATCGCTTCCGTCGCCACCCCAACCTGCTCAAAGCAGGTCCAGAACAAGTCGTGGCCAATG
GACCCGAACAGGTCTGGGTTGCAGACATAACCTATCTGCCTACGCAGGAAAGCGTGGCCTACGTGAGCCTTGTGACAGATGCGTACTCACGTAAGATCGT
TGGCCATCACGTGCATGAGAGCCTGCATGCCCAATCGGTGATGAAGGCACTGGAAAAAGCGGTAGGAGAGCGAAAAACCGATCAGATGCTGATTCATCAT
TCAGATCGCGGCGCCCAGTACTGCTCCGATCTCTATCAGCAGCTGCATACCAGGCATGGAATCCGGTGCTCGATGACTGATGGCTATGACTGTTATCAGA
ACGCTATGGCCGAGCGAGTAAACGGGATTTTGAAGACCGAGTTTCTACTCCATCGGCCTAAAGACTTGGCAGATGCAGTGAAAATGGTTGACGAATCGGT
GCAGATCTACAATGGGGAGCGGCCACACTTATCCCTGAAATACAAAACGCCAGATGCGGTGCATCGGGCGTTTTGAGCGTGAAACAGGTGTAAACCTATT
TCAGGACTAGACA
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
402 bp133 aa54455+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MDSGKRRSQRDYTLAFKLSVVDQVEKGELSYKEAQRRYGIQGRSTVLVWLRKHGRQDWSQGASIREQRSRSMTEPTLPPTPEQRIKELEEQLELSNQKAQ
FFEAVVNVLKNDYGVSVVKKPPGKSSRKGKSKT

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
868 bp288 aa4091276+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

KSHPASPLARANPRPEHYQGLPVHGISRQAYYKRNRAFDARVCQDQEVVDFVLEKRRRQPKLGTRKLHYLMSVEAPASLCVGRDRMFTILRGARELVPRK
RAYHKTTHSHHRFRRHPNLLKAGPEQVVANGPEQVWVADITYLPTQESVAYVSLVTDAYSRKIVGHHVHESLHAQSVMKALEKAVGERKTDQMLIHHSDR
GAQYCSDLYQQLHTRHGIRCSMTDGYDCYQNAMAERVNGILKTEFLLHRPKDLADAVKMVDESVQIYNGERPHLSLKYKTPDAVHRAF

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1223 bp406 aa541276+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

DSGKRRSQRDYTLAFKLSVVDQVEKGELSYKEAQRRYGIQGRSTVLVWLRKHGRQDWSQGASIREQRSRSMTEPTLPPTPEQRIKELEEQLELSNQKAQF
FEAVVNVLKNDYGVSVVKKSHPASPLARANPRPEHYQGLPVHGISRQAYYKRNRAFDARVCQDQEVVDFVLEKRRRQPKLGTRKLHYLMSVEAPASLCVG
RDRMFTILRGARELVPRKRAYHKTTHSHHRFRRHPNLLKAGPEQVVANGPEQVWVADITYLPTQESVAYVSLVTDAYSRKIVGHHVHESLHAQSVMKALE
KAVGERKTDQMLIHHSDRGAQYCSDLYQQLHTRHGIRCSMTDGYDCYQNAMAERVNGILKTEFLLHRPKDLADAVKMVDESVQIYNGERPHLSLKYKTPD
AVHRAF

 

Blast result :
Comments
There are 3 copies of ISPsy11 in the chromosome of this strain.
References
1] Buell,C.R., Joardar,V., Lindeberg,M., Selengut,J., Paulsen,I.T., Gwinn,M.L., Dodson,R.J., Deboy,R.T., Durkin,A.S., Kolonay,J.F., Madupu,R., Daugherty,S., Brinkac,L., Beanan,M.J., Haft,D.H., Nelson,W.C., Davidsen,T., Zafar,N., Zhou,L., Liu,J., Yuan,Q., Khouri,H., Fedorova,N., Tran,B., Russell,D., Berry,K., Utterback,T., Van Aken,S.E., Feldblyum,T.V., D'Ascenzo,M., Deng,W.L., Ramos,A.R., Alfano,J.R., Cartinhour,S., Chatterjee,A.K., Delaney,T.P., Lazarowitz,S.G., Martin,G.B., Schneider,D.J., Tang,X., Bender,C.L., White,O., Fraser,C.M. and Collmer,A. (2003) Proc. Natl. Acad. Sci. U.S.A. 100 (18), 10181-10186