ISPsy28

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_007005 ND Pseudomonas syringae
Pseudomonas syringae pv. syringae
DNA section
IS Length : 1292 bp

Ends


IR Length : 29/29

IRL : TGACCTTGCCCCTGAAAAACGTATCCCTTGCCAGGTGCCTCAATAGCCGC
IRR : TGACCTTGCCCCCGAGAAACGTATCCCTTAACCCGGCGTCGGGGTTGAGT

Insertion site


Left flankDirect repeatRight flankDR Length
TGTTTTTTAACGTTTTATATGAT3

DNA sequence

TGACCTTGCCCCTGAAAAACGTATCCCTTGCCAGGTGCCTCAATAGCCGCAAGGATACGACATGACTAAGCCCAAGACAGATCGCGTTAAATACACCCTT
GAGTTCAAACTTGAGGCCGTGCGACTGGTCGATACAGGCCTGACGCTTGCTGCCGCTGCCCGCTCTCTGGGTATATCCGACCAGACCTTGTTCAACTGGG
TCAAGGCGCATCGCCAAGGCAGGCTGACCGGCGCTGACATCAAGTCTGTCACTCCCGAGCAGATGGAGATAAGCCGTCTACGAGCCGAGCTGGCACGCGT
CAAGATGGAGCGCGACATTCTGGAAAAGGCGACGGCGTACTTCGCAAAAGCATCCAGCTGAAGTACGCGTTCATCTTTACTCATCGCCGTCTCTGGCCTA
TCGGTGTGCAGTGCCGGGTGCTGGGCGTCAGTGCGACCGGCTTTCATTGCCACCAAGCTCGCTGTGCAGTTAATTGCCCTCAACGAGGTTTAAGCGACGC
AGCATTGCTCGTCCACATTCGCGCCGCTCATGCCCGCAGTCGTGGCAGCTACGGCTGGCCCAGGATCTGGCACGGTTTGCTGGCTGACGGCGTTCGCGTC
GGCAAAGAGCGTGTGCAAAAGCTGATGCAGCTTCATGGTATTTGCGGCAAGGGCAAACGACGTTTCAAAGTGACCACTGATAGCGCTCATGACTTACCCA
TTTCGGAGAACCTGCTGGATCGCCAGTTCGCCGTGATGGAGCCTGACAGAGCTTGGGTGGGCGACATCACCTACATCCCGACAGATGAGGGCTGGCTGTT
TCTGGCGGTAGTGGTAGACCTGTTCAGTCGCCAGATCGTGGGCTGGTCGATGGACGAGCGCATGAAAAGCAGCCTGGTGATTGATGCGTTGCGCATGGCC
TGGTTCAAGCGTCATCCACATAAGGCCTCCGGACTGCTGTTTCATAGTGATCGCGGGAGCCAGTACGCCAGCTTTGATTTTCGTCATGTCCTTCAGGGCT
ACGGGATTGTCAGCTCGATGAGTCGACGGGGCAATTGCTGGGATAACGCGTGCAGCGAGACCGTGTTCGGCTCGTTGAAGGTGGAACGTCTGCATGGCTT
GAAATTCAAAACCCGACGCGCTGCCAAGGACGAGGTCATTAACTGGCTGCTGTGGTACAACCAGGAGCGCCTGCACTCGACGCTTCATTACGTAAGTCCG
ATGCAATACGAGCAGAACTGGCAAAGGCAACAACCTTAGATACTCAACCCCGACGCCGGGTTAAGGGATACGTTTCTCGGGGGCAAGGTCA
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
300 bp99 aa62361+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MTKPKTDRVKYTLEFKLEAVRLVDTGLTLAAAARSLGISDQTLFNWVKAHRQGRLTGADIKSVTPEQMEISRLRAELARVKMERDILEKATAYFAKASS

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1002 bp333 aa2381239+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

HQVCHSRADGDKPSTSRAGTRQDGARHSGKGDGVLRKSIQLKYAFIFTHRRLWPIGVQCRVLGVSATGFHCHQARCAVNCPQRGLSDAALLVHIRAAHAR
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1178 bp433 aa621239+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MTKPKTDRVKYTLEFKLEAVRLVDTGLTLAAAARSLGISDQTLFNWVKAHRQGRLTGADIKSVTPEQMEISRLRAELARVKMERDILEKATAYFAKASSH
QVCHSRADGDKPSTSRAGTRQDGARHSGKGDGVLRKSIQLKYAFIFTHRRLWPIGVQCRVMLGVSATGFHCHQARCAVNCPQRGLSDAALLVHIRAAHAR
SRGSYGWPRIWHGLLADGVRVGKERVQKLMQLHGICGKGKRRFKVTTDSAHDLPISENLLDRQFAVMEPDRAWVGDITYIPTDEGWLFLAVVVDLFSRQI
VGWSMDERMKSSLVIDALRMAWFKRHPHKASGLLFHSDRGSQYASFDFRHVLQGYGIVSSMSRRGNCWDNACSETVFGSLKVERLHGLKFKTRRAAKDEV
INWLLWYNQERLHSTLHYVSPMQYEQNWQRQQP

 

Blast result :
Comments
ISPsy28 is 80% (ORFA) and 75% (ORFB) aa similar to ISISBxe1. The third ORF is a putative ORFAB transposase reconstructed in sillico by -1 frameshift.
References
1] Feil,H., Feil,W.S., Chain,P., Larimer,F., Dibartolo,G., Copeland,A., Lykidis,A., Trong,S., Nolan,M., Goltsman,E., Thiel,J., Malfatti,S., Loper,J.E., Lapidus,A., Detter,J.C., Land,M., Richardson,P.M., Kyrpides,N.C., Ivanova,N. and Lindow,S.E.(2005) Proc. Natl. Acad. Sci. U.S.A. 102 (31), 11064-11069.